I: pbuilder: network access will be disabled during build I: Current time: Mon Jun 15 15:08:27 +14 2020 I: pbuilder-time-stamp: 1592183307 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [iqtree_1.6.9+dfsg-1.dsc] I: copying [./iqtree_1.6.9+dfsg.orig.tar.xz] I: copying [./iqtree_1.6.9+dfsg-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Thu Jan 3 03:51:35 2019 +14 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_1.6.9+dfsg-1.dsc dpkg-source: info: extracting iqtree in iqtree-1.6.9+dfsg dpkg-source: info: unpacking iqtree_1.6.9+dfsg.orig.tar.xz dpkg-source: info: unpacking iqtree_1.6.9+dfsg-1.debian.tar.xz I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/8039/tmp/hooks/D01_modify_environment starting debug: Running on profitbricks-build12-i386. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/8039/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/8039/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="0" [2]="3" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") BASH_VERSION='5.0.3(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=i386 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=10' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=i686 HOST_ARCH=i386 IFS=' ' INVOCATION_ID=e9f4eeb16434407fa4c9c2a472e855ff LANG=C LANGUAGE=de_CH:de LC_ALL=C LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so MACHTYPE=i686-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=8039 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.eArLrqDMJT/pbuilderrc_qP31 --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.eArLrqDMJT/b2 --logfile b2/build.log iqtree_1.6.9+dfsg-1.dsc' SUDO_GID=112 SUDO_UID=107 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://78.137.99.97:3128 I: uname -a Linux i-capture-the-hostname 4.19.0-9-686-pae #1 SMP Debian 4.19.118-2+deb10u1 (2020-06-07) i686 GNU/Linux I: ls -l /bin total 5492 -rwxr-xr-x 1 root root 1302248 Apr 18 2019 bash -rwxr-xr-x 3 root root 38280 Jul 11 2019 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 11 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 11 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 11 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 11 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 25 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 11 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 11 2019 bzgrep -rwxr-xr-x 3 root root 38280 Jul 11 2019 bzip2 -rwxr-xr-x 1 root root 17768 Jul 11 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 11 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 11 2019 bzmore -rwxr-xr-x 1 root root 38692 Mar 1 2019 cat -rwxr-xr-x 1 root root 75588 Mar 1 2019 chgrp -rwxr-xr-x 1 root root 63268 Mar 1 2019 chmod -rwxr-xr-x 1 root root 75588 Mar 1 2019 chown -rwxr-xr-x 1 root root 153732 Mar 1 2019 cp -rwxr-xr-x 1 root root 132820 Jan 18 2019 dash -rwxr-xr-x 1 root root 120676 Mar 1 2019 date -rwxr-xr-x 1 root root 92040 Mar 1 2019 dd -rwxr-xr-x 1 root root 100620 Mar 1 2019 df -rwxr-xr-x 1 root root 149736 Mar 1 2019 dir -rwxr-xr-x 1 root root 79412 Jan 10 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 27 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 27 2018 domainname -> hostname -rwxr-xr-x 1 root root 34532 Mar 1 2019 echo -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep -rwxr-xr-x 1 root root 34532 Mar 1 2019 false -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep -rwxr-xr-x 1 root root 67700 Jan 10 2019 findmnt -rwsr-xr-x 1 root root 30112 Apr 23 09:38 fusermount -rwxr-xr-x 1 root root 206392 Jan 8 2019 grep -rwxr-xr-x 2 root root 2345 Jan 6 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 6 2019 gzexe -rwxr-xr-x 1 root root 100952 Jan 6 2019 gzip -rwxr-xr-x 1 root root 21916 Sep 27 2018 hostname -rwxr-xr-x 1 root root 79752 Mar 1 2019 ln -rwxr-xr-x 1 root root 55400 Jul 27 2018 login -rwxr-xr-x 1 root root 149736 Mar 1 2019 ls -rwxr-xr-x 1 root root 112032 Jan 10 2019 lsblk -rwxr-xr-x 1 root root 87972 Mar 1 2019 mkdir -rwxr-xr-x 1 root root 79748 Mar 1 2019 mknod -rwxr-xr-x 1 root root 46916 Mar 1 2019 mktemp -rwxr-xr-x 1 root root 42348 Jan 10 2019 more -rwsr-xr-x 1 root root 50592 Jan 10 2019 mount -rwxr-xr-x 1 root root 13724 Jan 10 2019 mountpoint -rwxr-xr-x 1 root root 157832 Mar 1 2019 mv lrwxrwxrwx 1 root root 8 Sep 27 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 15 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38660 Mar 1 2019 pwd lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash -rwxr-xr-x 1 root root 46852 Mar 1 2019 readlink -rwxr-xr-x 1 root root 75588 Mar 1 2019 rm -rwxr-xr-x 1 root root 42756 Mar 1 2019 rmdir -rwxr-xr-x 1 root root 22276 Jan 22 2019 run-parts -rwxr-xr-x 1 root root 125036 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Jun 15 15:16 sh -> bash lrwxrwxrwx 1 root root 4 Jun 13 22:27 sh.distrib -> dash -rwxr-xr-x 1 root root 34532 Mar 1 2019 sleep -rwxr-xr-x 1 root root 79652 Mar 1 2019 stty -rwsr-xr-x 1 root root 71072 Jan 10 2019 su -rwxr-xr-x 1 root root 34564 Mar 1 2019 sync -rwxr-xr-x 1 root root 504024 Apr 24 2019 tar -rwxr-xr-x 1 root root 13860 Jan 22 2019 tempfile -rwxr-xr-x 1 root root 104292 Mar 1 2019 touch -rwxr-xr-x 1 root root 34532 Mar 1 2019 true -rwxr-xr-x 1 root root 17768 Apr 23 09:38 ulockmgr_server -rwsr-xr-x 1 root root 30108 Jan 10 2019 umount -rwxr-xr-x 1 root root 34532 Mar 1 2019 uname -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress -rwxr-xr-x 1 root root 149736 Mar 1 2019 vdir -rwxr-xr-x 1 root root 34208 Jan 10 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 22 2019 which lrwxrwxrwx 1 root root 8 Sep 27 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 6 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 6 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 6 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 6 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 6 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 6 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 6 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 6 2019 zless -rwxr-xr-x 1 root root 1841 Jan 6 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 6 2019 znew I: user script /srv/workspace/pbuilder/8039/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 11~), cmake, libeigen3-dev, libsprng2-dev, mpi-default-dev, zlib1g-dev, help2man, time, chrpath dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19234 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. pbuilder-satisfydepends-dummy depends on libsprng2-dev; however: Package libsprng2-dev is not installed. pbuilder-satisfydepends-dummy depends on mpi-default-dev; however: Package mpi-default-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on help2man; however: Package help2man is not installed. pbuilder-satisfydepends-dummy depends on time; however: Package time is not installed. pbuilder-satisfydepends-dummy depends on chrpath; however: Package chrpath is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} chrpath{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} help2man{a} ibverbs-providers{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libbsd0{a} libcroco3{a} libcurl4{a} libedit2{a} libeigen3-dev{a} libelf1{a} libevent-2.1-6{a} libevent-core-2.1-6{a} libevent-pthreads-2.1-6{a} libexpat1{a} libfabric1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libglib2.0-0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgssapi-krb5-2{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc5{a} libibverbs-dev{a} libibverbs1{a} libicu63{a} libjsoncpp1{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.4-2{a} libldap-common{a} liblocale-gettext-perl{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi3{a} libpciaccess0{a} libpipeline1{a} libpmix2{a} libprocps7{a} libpsl5{a} libpsm-infinipath1{a} librdmacm1{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libsprng2{a} libsprng2-dev{a} libssh2-1{a} libssl1.1{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} lsb-base{a} m4{a} man-db{a} mpi-default-dev{a} ocl-icd-libopencl1{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} pkg-config{a} po-debconf{a} procps{a} sensible-utils{a} time{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libcoarrays-openmpi-dev libglib2.0-data libgpm2 libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix shared-mime-info wget xauth xdg-user-dirs 0 packages upgraded, 100 newly installed, 0 to remove and 0 not upgraded. Need to get 40.3 MB of archives. After unpacking 153 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main i386 libbsd0 i386 0.9.1-2 [104 kB] Get: 2 http://deb.debian.org/debian buster/main i386 bsdmainutils i386 11.1.2+b1 [193 kB] Get: 3 http://deb.debian.org/debian buster/main i386 libuchardet0 i386 0.0.6-3 [65.2 kB] Get: 4 http://deb.debian.org/debian buster/main i386 groff-base i386 1.22.4-3 [935 kB] Get: 5 http://deb.debian.org/debian buster/main i386 libpipeline1 i386 1.5.1-2 [33.3 kB] Get: 6 http://deb.debian.org/debian buster/main i386 man-db i386 2.8.5-2 [1284 kB] Get: 7 http://deb.debian.org/debian buster/main i386 liblocale-gettext-perl i386 1.07-3+b4 [19.3 kB] Get: 8 http://deb.debian.org/debian buster/main i386 libncurses6 i386 6.1+20181013-2+deb10u2 [109 kB] Get: 9 http://deb.debian.org/debian buster/main i386 libprocps7 i386 2:3.3.15-2 [62.7 kB] Get: 10 http://deb.debian.org/debian buster/main i386 lsb-base all 10.2019051400 [28.4 kB] Get: 11 http://deb.debian.org/debian buster/main i386 procps i386 2:3.3.15-2 [259 kB] Get: 12 http://deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 13 http://deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4+deb10u1 [242 kB] Get: 14 http://deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4+deb10u1 [124 kB] Get: 15 http://deb.debian.org/debian buster/main i386 file i386 1:5.35-4+deb10u1 [66.3 kB] Get: 16 http://deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 17 http://deb.debian.org/debian buster/main i386 libedit2 i386 3.1-20181209-1 [98.2 kB] Get: 18 http://deb.debian.org/debian buster/main i386 libkeyutils1 i386 1.6-6 [15.4 kB] Get: 19 http://deb.debian.org/debian buster/main i386 libkrb5support0 i386 1.17-3 [68.6 kB] Get: 20 http://deb.debian.org/debian buster/main i386 libk5crypto3 i386 1.17-3 [126 kB] Get: 21 http://deb.debian.org/debian buster/main i386 libssl1.1 i386 1.1.1d-0+deb10u3 [1537 kB] Get: 22 http://deb.debian.org/debian buster/main i386 libkrb5-3 i386 1.17-3 [396 kB] Get: 23 http://deb.debian.org/debian buster/main i386 libgssapi-krb5-2 i386 1.17-3 [168 kB] Get: 24 http://deb.debian.org/debian buster/main i386 openssh-client i386 1:7.9p1-10+deb10u2 [834 kB] Get: 25 http://deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 26 http://deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 27 http://deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 28 http://deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 29 http://deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 30 http://deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 31 http://deb.debian.org/debian buster/main i386 chrpath i386 0.16-2+b1 [17.5 kB] Get: 32 http://deb.debian.org/debian buster/main i386 cmake-data all 3.13.4-1 [1476 kB] Get: 33 http://deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6+deb10u1 [8451 kB] Get: 34 http://deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 35 http://deb.debian.org/debian buster/main i386 libarchive13 i386 3.3.3-4+deb10u1 [351 kB] Get: 36 http://deb.debian.org/debian buster/main i386 libsasl2-modules-db i386 2.1.27+dfsg-1+deb10u1 [70.1 kB] Get: 37 http://deb.debian.org/debian buster/main i386 libsasl2-2 i386 2.1.27+dfsg-1+deb10u1 [110 kB] Get: 38 http://deb.debian.org/debian buster/main i386 libldap-common all 2.4.47+dfsg-3+deb10u2 [89.7 kB] Get: 39 http://deb.debian.org/debian buster/main i386 libldap-2.4-2 i386 2.4.47+dfsg-3+deb10u2 [236 kB] Get: 40 http://deb.debian.org/debian buster/main i386 libnghttp2-14 i386 1.36.0-2+deb10u1 [90.3 kB] Get: 41 http://deb.debian.org/debian buster/main i386 libpsl5 i386 0.20.2-2 [54.4 kB] Get: 42 http://deb.debian.org/debian buster/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2 [64.2 kB] Get: 43 http://deb.debian.org/debian buster/main i386 libssh2-1 i386 1.8.0-2.1 [147 kB] Get: 44 http://deb.debian.org/debian buster/main i386 libcurl4 i386 7.64.0-4+deb10u1 [358 kB] Get: 45 http://deb.debian.org/debian buster/main i386 libexpat1 i386 2.2.6-2+deb10u1 [104 kB] Get: 46 http://deb.debian.org/debian buster/main i386 libjsoncpp1 i386 1.7.4-3 [85.0 kB] Get: 47 http://deb.debian.org/debian buster/main i386 librhash0 i386 1.3.8-1 [135 kB] Get: 48 http://deb.debian.org/debian buster/main i386 libuv1 i386 1.24.1-1 [116 kB] Get: 49 http://deb.debian.org/debian buster/main i386 cmake i386 3.13.4-1 [3747 kB] Get: 50 http://deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 51 http://deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 52 http://deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 53 http://deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 54 http://deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 55 http://deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 56 http://deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 57 http://deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2+deb10u2 [1334 kB] Get: 58 http://deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 59 http://deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 60 http://deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 61 http://deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 62 http://deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 63 http://deb.debian.org/debian buster/main i386 help2man i386 1.47.8 [177 kB] Get: 64 http://deb.debian.org/debian buster/main i386 libnl-3-200 i386 3.4.0-1 [65.8 kB] Get: 65 http://deb.debian.org/debian buster/main i386 libnl-route-3-200 i386 3.4.0-1 [170 kB] Get: 66 http://deb.debian.org/debian buster/main i386 libibverbs1 i386 22.1-1 [53.9 kB] Get: 67 http://deb.debian.org/debian buster/main i386 ibverbs-providers i386 22.1-1 [201 kB] Get: 68 http://deb.debian.org/debian buster/main i386 pkg-config i386 0.29-6 [64.7 kB] Get: 69 http://deb.debian.org/debian buster/main i386 libeigen3-dev all 3.3.7-1 [850 kB] Get: 70 http://deb.debian.org/debian buster/main i386 libevent-2.1-6 i386 2.1.8-stable-4 [191 kB] Get: 71 http://deb.debian.org/debian buster/main i386 libevent-core-2.1-6 i386 2.1.8-stable-4 [137 kB] Get: 72 http://deb.debian.org/debian buster/main i386 libevent-pthreads-2.1-6 i386 2.1.8-stable-4 [48.1 kB] Get: 73 http://deb.debian.org/debian buster/main i386 libpsm-infinipath1 i386 3.3+20.604758e7-6 [178 kB] Get: 74 http://deb.debian.org/debian buster/main i386 librdmacm1 i386 22.1-1 [68.8 kB] Get: 75 http://deb.debian.org/debian buster/main i386 libfabric1 i386 1.6.2-3 [364 kB] Get: 76 http://deb.debian.org/debian buster/main i386 libgfortran5 i386 8.3.0-6 [549 kB] Get: 77 http://deb.debian.org/debian buster/main i386 libgmpxx4ldbl i386 2:6.1.2+dfsg-4 [23.2 kB] Get: 78 http://deb.debian.org/debian buster/main i386 libgmp-dev i386 2:6.1.2+dfsg-4 [648 kB] Get: 79 http://deb.debian.org/debian buster/main i386 libltdl7 i386 2.4.6-9 [392 kB] Get: 80 http://deb.debian.org/debian buster/main i386 libnuma1 i386 2.0.12-1 [27.7 kB] Get: 81 http://deb.debian.org/debian buster/main i386 libhwloc5 i386 1.11.12-3 [119 kB] Get: 82 http://deb.debian.org/debian buster/main i386 libnuma-dev i386 2.0.12-1 [40.9 kB] Get: 83 http://deb.debian.org/debian buster/main i386 libltdl-dev i386 2.4.6-9 [164 kB] Get: 84 http://deb.debian.org/debian buster/main i386 libhwloc-dev i386 1.11.12-3 [185 kB] Get: 85 http://deb.debian.org/debian buster/main i386 libpciaccess0 i386 0.14-1 [55.7 kB] Get: 86 http://deb.debian.org/debian buster/main i386 ocl-icd-libopencl1 i386 2.2.12-2 [37.2 kB] Get: 87 http://deb.debian.org/debian buster/main i386 libhwloc-plugins i386 1.11.12-3 [17.8 kB] Get: 88 http://deb.debian.org/debian buster/main i386 libnl-3-dev i386 3.4.0-1 [107 kB] Get: 89 http://deb.debian.org/debian buster/main i386 libnl-route-3-dev i386 3.4.0-1 [193 kB] Get: 90 http://deb.debian.org/debian buster/main i386 libibverbs-dev i386 22.1-1 [385 kB] Get: 91 http://deb.debian.org/debian buster/main i386 libpmix2 i386 3.1.2-3 [541 kB] Get: 92 http://deb.debian.org/debian buster/main i386 libopenmpi3 i386 3.1.3-11 [2236 kB] Get: 93 http://deb.debian.org/debian buster/main i386 openmpi-common all 3.1.3-11 [165 kB] Get: 94 http://deb.debian.org/debian buster/main i386 openmpi-bin i386 3.1.3-11 [200 kB] Get: 95 http://deb.debian.org/debian buster/main i386 libopenmpi-dev i386 3.1.3-11 [963 kB] Get: 96 http://deb.debian.org/debian buster/main i386 libsprng2 i386 2.0a-12 [80.0 kB] Get: 97 http://deb.debian.org/debian buster/main i386 libsprng2-dev i386 2.0a-12 [83.5 kB] Get: 98 http://deb.debian.org/debian buster/main i386 mpi-default-dev i386 1.13 [5476 B] Get: 99 http://deb.debian.org/debian buster/main i386 time i386 1.7-25.1+b1 [31.5 kB] Get: 100 http://deb.debian.org/debian buster/main i386 zlib1g-dev i386 1:1.2.11.dfsg-1 [216 kB] Fetched 40.3 MB in 16s (2507 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (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 ... 19234 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_i386.deb ... Unpacking libbsd0:i386 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_i386.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../02-libuchardet0_0.0.6-3_i386.deb ... Unpacking libuchardet0:i386 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_i386.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../04-libpipeline1_1.5.1-2_i386.deb ... Unpacking libpipeline1:i386 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_i386.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../06-liblocale-gettext-perl_1.07-3+b4_i386.deb ... Unpacking liblocale-gettext-perl (1.07-3+b4) ... Selecting previously unselected package libncurses6:i386. Preparing to unpack .../07-libncurses6_6.1+20181013-2+deb10u2_i386.deb ... Unpacking libncurses6:i386 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package libprocps7:i386. Preparing to unpack .../08-libprocps7_2%3a3.3.15-2_i386.deb ... Unpacking libprocps7:i386 (2:3.3.15-2) ... Selecting previously unselected package lsb-base. Preparing to unpack .../09-lsb-base_10.2019051400_all.deb ... Unpacking lsb-base (10.2019051400) ... Selecting previously unselected package procps. Preparing to unpack .../10-procps_2%3a3.3.15-2_i386.deb ... Unpacking procps (2:3.3.15-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../11-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../12-libmagic-mgc_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../13-libmagic1_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic1:i386 (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../14-file_1%3a5.35-4+deb10u1_i386.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../15-gettext-base_0.19.8.1-9_i386.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libedit2:i386. Preparing to unpack .../16-libedit2_3.1-20181209-1_i386.deb ... Unpacking libedit2:i386 (3.1-20181209-1) ... Selecting previously unselected package libkeyutils1:i386. Preparing to unpack .../17-libkeyutils1_1.6-6_i386.deb ... Unpacking libkeyutils1:i386 (1.6-6) ... Selecting previously unselected package libkrb5support0:i386. Preparing to unpack .../18-libkrb5support0_1.17-3_i386.deb ... Unpacking libkrb5support0:i386 (1.17-3) ... Selecting previously unselected package libk5crypto3:i386. Preparing to unpack .../19-libk5crypto3_1.17-3_i386.deb ... Unpacking libk5crypto3:i386 (1.17-3) ... Selecting previously unselected package libssl1.1:i386. Preparing to unpack .../20-libssl1.1_1.1.1d-0+deb10u3_i386.deb ... Unpacking libssl1.1:i386 (1.1.1d-0+deb10u3) ... Selecting previously unselected package libkrb5-3:i386. Preparing to unpack .../21-libkrb5-3_1.17-3_i386.deb ... Unpacking libkrb5-3:i386 (1.17-3) ... Selecting previously unselected package libgssapi-krb5-2:i386. Preparing to unpack .../22-libgssapi-krb5-2_1.17-3_i386.deb ... Unpacking libgssapi-krb5-2:i386 (1.17-3) ... Selecting previously unselected package openssh-client. Preparing to unpack .../23-openssh-client_1%3a7.9p1-10+deb10u2_i386.deb ... Unpacking openssh-client (1:7.9p1-10+deb10u2) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../24-libsigsegv2_2.12-2_i386.deb ... Unpacking libsigsegv2:i386 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../25-m4_1.4.18-2_i386.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../26-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../27-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../28-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../29-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package chrpath. Preparing to unpack .../30-chrpath_0.16-2+b1_i386.deb ... Unpacking chrpath (0.16-2+b1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../31-cmake-data_3.13.4-1_all.deb ... Unpacking cmake-data (3.13.4-1) ... Selecting previously unselected package libicu63:i386. Preparing to unpack .../32-libicu63_63.1-6+deb10u1_i386.deb ... Unpacking libicu63:i386 (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../33-libxml2_2.9.4+dfsg1-7+b3_i386.deb ... Unpacking libxml2:i386 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libarchive13:i386. Preparing to unpack .../34-libarchive13_3.3.3-4+deb10u1_i386.deb ... Unpacking libarchive13:i386 (3.3.3-4+deb10u1) ... Selecting previously unselected package libsasl2-modules-db:i386. Preparing to unpack .../35-libsasl2-modules-db_2.1.27+dfsg-1+deb10u1_i386.deb ... Unpacking libsasl2-modules-db:i386 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libsasl2-2:i386. Preparing to unpack .../36-libsasl2-2_2.1.27+dfsg-1+deb10u1_i386.deb ... Unpacking libsasl2-2:i386 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../37-libldap-common_2.4.47+dfsg-3+deb10u2_all.deb ... Unpacking libldap-common (2.4.47+dfsg-3+deb10u2) ... Selecting previously unselected package libldap-2.4-2:i386. Preparing to unpack .../38-libldap-2.4-2_2.4.47+dfsg-3+deb10u2_i386.deb ... Unpacking libldap-2.4-2:i386 (2.4.47+dfsg-3+deb10u2) ... Selecting previously unselected package libnghttp2-14:i386. Preparing to unpack .../39-libnghttp2-14_1.36.0-2+deb10u1_i386.deb ... Unpacking libnghttp2-14:i386 (1.36.0-2+deb10u1) ... Selecting previously unselected package libpsl5:i386. Preparing to unpack .../40-libpsl5_0.20.2-2_i386.deb ... Unpacking libpsl5:i386 (0.20.2-2) ... Selecting previously unselected package librtmp1:i386. Preparing to unpack .../41-librtmp1_2.4+20151223.gitfa8646d.1-2_i386.deb ... Unpacking librtmp1:i386 (2.4+20151223.gitfa8646d.1-2) ... Selecting previously unselected package libssh2-1:i386. Preparing to unpack .../42-libssh2-1_1.8.0-2.1_i386.deb ... Unpacking libssh2-1:i386 (1.8.0-2.1) ... Selecting previously unselected package libcurl4:i386. Preparing to unpack .../43-libcurl4_7.64.0-4+deb10u1_i386.deb ... Unpacking libcurl4:i386 (7.64.0-4+deb10u1) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../44-libexpat1_2.2.6-2+deb10u1_i386.deb ... Unpacking libexpat1:i386 (2.2.6-2+deb10u1) ... Selecting previously unselected package libjsoncpp1:i386. Preparing to unpack .../45-libjsoncpp1_1.7.4-3_i386.deb ... Unpacking libjsoncpp1:i386 (1.7.4-3) ... Selecting previously unselected package librhash0:i386. Preparing to unpack .../46-librhash0_1.3.8-1_i386.deb ... Unpacking librhash0:i386 (1.3.8-1) ... Selecting previously unselected package libuv1:i386. Preparing to unpack .../47-libuv1_1.24.1-1_i386.deb ... Unpacking libuv1:i386 (1.24.1-1) ... Selecting previously unselected package cmake. Preparing to unpack .../48-cmake_3.13.4-1_i386.deb ... Unpacking cmake (3.13.4-1) ... Selecting previously unselected package libtool. Preparing to unpack .../49-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../50-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../51-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../52-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../53-dh-strip-nondeterminism_1.1.2-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.2-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../54-libelf1_0.176-1.1_i386.deb ... Unpacking libelf1:i386 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../55-dwz_0.12-3_i386.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../56-libglib2.0-0_2.58.3-2+deb10u2_i386.deb ... Unpacking libglib2.0-0:i386 (2.58.3-2+deb10u2) ... Selecting previously unselected package libcroco3:i386. Preparing to unpack .../57-libcroco3_0.6.12-3_i386.deb ... Unpacking libcroco3:i386 (0.6.12-3) ... Selecting previously unselected package gettext. Preparing to unpack .../58-gettext_0.19.8.1-9_i386.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../59-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../60-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../61-debhelper_12.1.1_all.deb ... Unpacking debhelper (12.1.1) ... Selecting previously unselected package help2man. Preparing to unpack .../62-help2man_1.47.8_i386.deb ... Unpacking help2man (1.47.8) ... Selecting previously unselected package libnl-3-200:i386. Preparing to unpack .../63-libnl-3-200_3.4.0-1_i386.deb ... Unpacking libnl-3-200:i386 (3.4.0-1) ... Selecting previously unselected package libnl-route-3-200:i386. Preparing to unpack .../64-libnl-route-3-200_3.4.0-1_i386.deb ... Unpacking libnl-route-3-200:i386 (3.4.0-1) ... Selecting previously unselected package libibverbs1:i386. Preparing to unpack .../65-libibverbs1_22.1-1_i386.deb ... Unpacking libibverbs1:i386 (22.1-1) ... Selecting previously unselected package ibverbs-providers:i386. Preparing to unpack .../66-ibverbs-providers_22.1-1_i386.deb ... Unpacking ibverbs-providers:i386 (22.1-1) ... Selecting previously unselected package pkg-config. Preparing to unpack .../67-pkg-config_0.29-6_i386.deb ... Unpacking pkg-config (0.29-6) ... Selecting previously unselected package libeigen3-dev. Preparing to unpack .../68-libeigen3-dev_3.3.7-1_all.deb ... Unpacking libeigen3-dev (3.3.7-1) ... Selecting previously unselected package libevent-2.1-6:i386. Preparing to unpack .../69-libevent-2.1-6_2.1.8-stable-4_i386.deb ... Unpacking libevent-2.1-6:i386 (2.1.8-stable-4) ... Selecting previously unselected package libevent-core-2.1-6:i386. Preparing to unpack .../70-libevent-core-2.1-6_2.1.8-stable-4_i386.deb ... Unpacking libevent-core-2.1-6:i386 (2.1.8-stable-4) ... Selecting previously unselected package libevent-pthreads-2.1-6:i386. Preparing to unpack .../71-libevent-pthreads-2.1-6_2.1.8-stable-4_i386.deb ... Unpacking libevent-pthreads-2.1-6:i386 (2.1.8-stable-4) ... Selecting previously unselected package libpsm-infinipath1. Preparing to unpack .../72-libpsm-infinipath1_3.3+20.604758e7-6_i386.deb ... Unpacking libpsm-infinipath1 (3.3+20.604758e7-6) ... Selecting previously unselected package librdmacm1:i386. Preparing to unpack .../73-librdmacm1_22.1-1_i386.deb ... Unpacking librdmacm1:i386 (22.1-1) ... Selecting previously unselected package libfabric1. Preparing to unpack .../74-libfabric1_1.6.2-3_i386.deb ... Unpacking libfabric1 (1.6.2-3) ... Selecting previously unselected package libgfortran5:i386. Preparing to unpack .../75-libgfortran5_8.3.0-6_i386.deb ... Unpacking libgfortran5:i386 (8.3.0-6) ... Selecting previously unselected package libgmpxx4ldbl:i386. Preparing to unpack .../76-libgmpxx4ldbl_2%3a6.1.2+dfsg-4_i386.deb ... Unpacking libgmpxx4ldbl:i386 (2:6.1.2+dfsg-4) ... Selecting previously unselected package libgmp-dev:i386. Preparing to unpack .../77-libgmp-dev_2%3a6.1.2+dfsg-4_i386.deb ... Unpacking libgmp-dev:i386 (2:6.1.2+dfsg-4) ... Selecting previously unselected package libltdl7:i386. Preparing to unpack .../78-libltdl7_2.4.6-9_i386.deb ... Unpacking libltdl7:i386 (2.4.6-9) ... Selecting previously unselected package libnuma1:i386. Preparing to unpack .../79-libnuma1_2.0.12-1_i386.deb ... Unpacking libnuma1:i386 (2.0.12-1) ... Selecting previously unselected package libhwloc5:i386. Preparing to unpack .../80-libhwloc5_1.11.12-3_i386.deb ... Unpacking libhwloc5:i386 (1.11.12-3) ... Selecting previously unselected package libnuma-dev:i386. Preparing to unpack .../81-libnuma-dev_2.0.12-1_i386.deb ... Unpacking libnuma-dev:i386 (2.0.12-1) ... Selecting previously unselected package libltdl-dev:i386. Preparing to unpack .../82-libltdl-dev_2.4.6-9_i386.deb ... Unpacking libltdl-dev:i386 (2.4.6-9) ... Selecting previously unselected package libhwloc-dev:i386. Preparing to unpack .../83-libhwloc-dev_1.11.12-3_i386.deb ... Unpacking libhwloc-dev:i386 (1.11.12-3) ... Selecting previously unselected package libpciaccess0:i386. Preparing to unpack .../84-libpciaccess0_0.14-1_i386.deb ... Unpacking libpciaccess0:i386 (0.14-1) ... Selecting previously unselected package ocl-icd-libopencl1:i386. Preparing to unpack .../85-ocl-icd-libopencl1_2.2.12-2_i386.deb ... Unpacking ocl-icd-libopencl1:i386 (2.2.12-2) ... Selecting previously unselected package libhwloc-plugins:i386. Preparing to unpack .../86-libhwloc-plugins_1.11.12-3_i386.deb ... Unpacking libhwloc-plugins:i386 (1.11.12-3) ... Selecting previously unselected package libnl-3-dev:i386. Preparing to unpack .../87-libnl-3-dev_3.4.0-1_i386.deb ... Unpacking libnl-3-dev:i386 (3.4.0-1) ... Selecting previously unselected package libnl-route-3-dev:i386. Preparing to unpack .../88-libnl-route-3-dev_3.4.0-1_i386.deb ... Unpacking libnl-route-3-dev:i386 (3.4.0-1) ... Selecting previously unselected package libibverbs-dev:i386. Preparing to unpack .../89-libibverbs-dev_22.1-1_i386.deb ... Unpacking libibverbs-dev:i386 (22.1-1) ... Selecting previously unselected package libpmix2:i386. Preparing to unpack .../90-libpmix2_3.1.2-3_i386.deb ... Unpacking libpmix2:i386 (3.1.2-3) ... Selecting previously unselected package libopenmpi3:i386. Preparing to unpack .../91-libopenmpi3_3.1.3-11_i386.deb ... Unpacking libopenmpi3:i386 (3.1.3-11) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../92-openmpi-common_3.1.3-11_all.deb ... Unpacking openmpi-common (3.1.3-11) ... Selecting previously unselected package openmpi-bin. Preparing to unpack .../93-openmpi-bin_3.1.3-11_i386.deb ... Unpacking openmpi-bin (3.1.3-11) ... Selecting previously unselected package libopenmpi-dev:i386. Preparing to unpack .../94-libopenmpi-dev_3.1.3-11_i386.deb ... Unpacking libopenmpi-dev:i386 (3.1.3-11) ... Selecting previously unselected package libsprng2. Preparing to unpack .../95-libsprng2_2.0a-12_i386.deb ... Unpacking libsprng2 (2.0a-12) ... Selecting previously unselected package libsprng2-dev. Preparing to unpack .../96-libsprng2-dev_2.0a-12_i386.deb ... Unpacking libsprng2-dev (2.0a-12) ... Selecting previously unselected package mpi-default-dev. Preparing to unpack .../97-mpi-default-dev_1.13_i386.deb ... Unpacking mpi-default-dev (1.13) ... Selecting previously unselected package time. Preparing to unpack .../98-time_1.7-25.1+b1_i386.deb ... Unpacking time (1.7-25.1+b1) ... Selecting previously unselected package zlib1g-dev:i386. Preparing to unpack .../99-zlib1g-dev_1%3a1.2.11.dfsg-1_i386.deb ... Unpacking zlib1g-dev:i386 (1:1.2.11.dfsg-1) ... Setting up libexpat1:i386 (2.2.6-2+deb10u1) ... Setting up libpipeline1:i386 (1.5.1-2) ... Setting up lsb-base (10.2019051400) ... Setting up libpciaccess0:i386 (0.14-1) ... Setting up time (1.7-25.1+b1) ... Setting up libkeyutils1:i386 (1.6-6) ... Setting up libpsl5:i386 (0.20.2-2) ... Setting up libmagic-mgc (1:5.35-4+deb10u1) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libglib2.0-0:i386 (2.58.3-2+deb10u2) ... No schema files found: doing nothing. Setting up libssl1.1:i386 (1.1.1d-0+deb10u3) ... Setting up libprocps7:i386 (2:3.3.15-2) ... Setting up libnghttp2-14:i386 (1.36.0-2+deb10u1) ... Setting up libmagic1:i386 (1:5.35-4+deb10u1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u1) ... Setting up libldap-common (2.4.47+dfsg-3+deb10u2) ... Setting up libicu63:i386 (63.1-6+deb10u1) ... Setting up libkrb5support0:i386 (1.17-3) ... Setting up libsasl2-modules-db:i386 (2.1.27+dfsg-1+deb10u1) ... Setting up autotools-dev (20180224.1) ... Setting up libgmpxx4ldbl:i386 (2:6.1.2+dfsg-4) ... Setting up libuv1:i386 (1.24.1-1) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2) ... Setting up libncurses6:i386 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:i386 (2.12-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up pkg-config (0.29-6) ... Setting up libk5crypto3:i386 (1.17-3) ... Setting up libltdl7:i386 (2.4.6-9) ... Setting up libsasl2-2:i386 (2.1.27+dfsg-1+deb10u1) ... Setting up libevent-core-2.1-6:i386 (2.1.8-stable-4) ... Setting up libgfortran5:i386 (8.3.0-6) ... Setting up libevent-2.1-6:i386 (2.1.8-stable-4) ... Setting up zlib1g-dev:i386 (1:1.2.11.dfsg-1) ... Setting up libnuma1:i386 (2.0.12-1) ... Setting up sensible-utils (0.0.12) ... Setting up ocl-icd-libopencl1:i386 (2.2.12-2) ... Setting up librhash0:i386 (1.3.8-1) ... Setting up libuchardet0:i386 (0.0.6-3) ... Setting up procps (2:3.3.15-2) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libnl-3-200:i386 (3.4.0-1) ... Setting up openmpi-common (3.1.3-11) ... Setting up libssh2-1:i386 (1.8.0-2.1) ... Setting up cmake-data (3.13.4-1) ... Setting up libkrb5-3:i386 (1.17-3) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/i386-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libbsd0:i386 (0.9.1-2) ... Setting up libelf1:i386 (0.176-1.1) ... Setting up libxml2:i386 (2.9.4+dfsg1-7+b3) ... Setting up liblocale-gettext-perl (1.07-3+b4) ... Setting up chrpath (0.16-2+b1) ... Setting up libsprng2 (2.0a-12) ... Setting up libjsoncpp1:i386 (1.7.4-3) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libevent-pthreads-2.1-6:i386 (2.1.8-stable-4) ... Setting up libgmp-dev:i386 (2:6.1.2+dfsg-4) ... Setting up libtool (2.4.6-9) ... Setting up libarchive13:i386 (3.3.3-4+deb10u1) ... Setting up libhwloc5:i386 (1.11.12-3) ... Setting up libedit2:i386 (3.1-20181209-1) ... Setting up libldap-2.4-2:i386 (2.4.47+dfsg-3+deb10u2) ... Setting up m4 (1.4.18-2) ... Setting up libhwloc-plugins:i386 (1.11.12-3) ... Setting up libnuma-dev:i386 (2.0.12-1) ... Setting up libnl-route-3-200:i386 (3.4.0-1) ... Setting up help2man (1.47.8) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libeigen3-dev (3.3.7-1) ... Setting up libgssapi-krb5-2:i386 (1.17-3) ... Setting up libcroco3:i386 (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up libnl-3-dev:i386 (3.4.0-1) ... Setting up groff-base (1.22.4-3) ... Setting up libsprng2-dev (2.0a-12) ... Setting up libcurl4:i386 (7.64.0-4+deb10u1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libibverbs1:i386 (22.1-1) ... Setting up gettext (0.19.8.1-9) ... Setting up libpmix2:i386 (3.1.2-3) ... Setting up ibverbs-providers:i386 (22.1-1) ... Setting up openssh-client (1:7.9p1-10+deb10u2) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libnl-route-3-dev:i386 (3.4.0-1) ... Setting up libltdl-dev:i386 (2.4.6-9) ... Setting up cmake (3.13.4-1) ... Setting up libhwloc-dev:i386 (1.11.12-3) ... Setting up librdmacm1:i386 (22.1-1) ... Setting up po-debconf (1.0.21) ... Setting up libibverbs-dev:i386 (22.1-1) ... Setting up libfabric1 (1.6.2-3) ... Setting up libopenmpi3:i386 (3.1.3-11) ... Setting up openmpi-bin (3.1.3-11) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up libopenmpi-dev:i386 (3.1.3-11) ... update-alternatives: using /usr/lib/i386-linux-gnu/openmpi/include to provide /usr/include/i386-linux-gnu/mpi (mpi-i386-linux-gnu) in auto mode Setting up mpi-default-dev (1.13) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/iqtree-1.6.9+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package iqtree dpkg-buildpackage: info: source version 1.6.9+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/iqtree-1.6.9+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 '/build/iqtree-1.6.9+dfsg' dh_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/iqtree-1.6.9+dfsg' dh_auto_configure -Bbuild.omp -- -DIQTREE_FLAGS="omp" cd build.omp && cmake -DCMAKE_INSTALL_PREFIX=/usr -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" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu -DIQTREE_FLAGS=omp .. -- The C compiler identification is GNU 8.3.0 -- The CXX compiler identification is GNU 8.3.0 -- 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 : GNU Compiler (gcc) Target binary : 32-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/i386-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_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/iqtree-1.6.9+dfsg/build.omp dh_auto_configure -Bbuild.serial -- -DIQTREE_FLAGS="" cd build.serial && cmake -DCMAKE_INSTALL_PREFIX=/usr -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" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu -DIQTREE_FLAGS= .. -- The C compiler identification is GNU 8.3.0 -- The CXX compiler identification is GNU 8.3.0 -- 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 : GNU Compiler (gcc) Target binary : 32-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/i386-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_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/iqtree-1.6.9+dfsg/build.serial dh_auto_configure -Bbuild.mpi -- -DIQTREE_FLAGS="mpi" cd build.mpi && cmake -DCMAKE_INSTALL_PREFIX=/usr -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" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu -DIQTREE_FLAGS=mpi .. -- The C compiler identification is GNU 8.3.0 -- The CXX compiler identification is GNU 8.3.0 -- 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 : GNU Compiler (gcc) -- Found MPI_C: /usr/lib/i386-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI_CXX: /usr/lib/i386-linux-gnu/openmpi/lib/libmpi_cxx.so (found version "3.1") -- Found MPI: TRUE (found version "3.1") Target binary : 32-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/i386-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_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/iqtree-1.6.9+dfsg/build.mpi dh override_dh_auto_configure make[1]: Leaving directory '/build/iqtree-1.6.9+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/iqtree-1.6.9+dfsg' dh_auto_build -Bbuild.omp cd build.omp && make -j10 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' /usr/bin/cmake -S/build/iqtree-1.6.9+dfsg -B/build/iqtree-1.6.9+dfsg/build.omp --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.omp/CMakeFiles /build/iqtree-1.6.9+dfsg/build.omp/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/depend make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/gsl /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/gsl /build/iqtree-1.6.9+dfsg/build.omp/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/depend make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/lbfgsb /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/lbfgsb /build/iqtree-1.6.9+dfsg/build.omp/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/ncl /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/ncl /build/iqtree-1.6.9+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pll /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/pll /build/iqtree-1.6.9+dfsg/build.omp/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/whtest /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/whtest /build/iqtree-1.6.9+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= Scanning dependencies of target gsl make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/sprng /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/sprng /build/iqtree-1.6.9+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/nclextra /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/nclextra /build/iqtree-1.6.9+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/vectorclass /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/vectorclass /build/iqtree-1.6.9+dfsg/build.omp/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= Scanning dependencies of target lbfgsb make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 1%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/binomial_tpe.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/binomial_tpe.cpp [ 1%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o Scanning dependencies of target sprng cd /build/iqtree-1.6.9+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/multinomial.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/multinomial.cpp make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' Scanning dependencies of target vectorclass make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 1%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/lbfgsb && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -c /build/iqtree-1.6.9+dfsg/lbfgsb/lbfgsb_new.cpp [ 1%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/lcg64.c.o -c /build/iqtree-1.6.9+dfsg/sprng/lcg64.c [ 2%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/vectorclass && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -c /build/iqtree-1.6.9+dfsg/vectorclass/instrset_detect.cpp Scanning dependencies of target nclextra make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 3%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/mpdablock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/mpdablock.cpp Scanning dependencies of target kernelsse make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 4%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylokernelsse.cpp Scanning dependencies of target whtest make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 5%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/eigen.c.o -c /build/iqtree-1.6.9+dfsg/whtest/eigen.c Scanning dependencies of target ncl make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 6%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/pow_int.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/pow_int.cpp [ 7%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gauss.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/gauss.cpp [ 8%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsassumptionsblock.cpp [ 8%] Linking CXX static library libvectorclass.a cd /build/iqtree-1.6.9+dfsg/build.omp/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.omp/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 /usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o Scanning dependencies of target pll make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' /usr/bin/ranlib libvectorclass.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 8%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/alignment.c.o -c /build/iqtree-1.6.9+dfsg/pll/alignment.c [ 8%] Built target vectorclass [ 9%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o [ 9%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/makeseed.c.o -c /build/iqtree-1.6.9+dfsg/sprng/makeseed.c cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsblock.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/alignment.c:40: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 9%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gaussinv.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/gaussinv.cpp [ 10%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/memory.c.o -c /build/iqtree-1.6.9+dfsg/sprng/memory.c [ 11%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gausspdf.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/gausspdf.cpp [ 11%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/store.c.o -c /build/iqtree-1.6.9+dfsg/sprng/store.c [ 11%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/msetsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/msetsblock.cpp [ 11%] Linking CXX static library libgsl.a [ 12%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/primes-lcg64.c.o -c /build/iqtree-1.6.9+dfsg/sprng/primes-lcg64.c cd /build/iqtree-1.6.9+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 [ 13%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/bipartitionList.c.o -c /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 13%] Built target gsl [ 13%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/checkid.c.o -c /build/iqtree-1.6.9+dfsg/sprng/checkid.c In file included from /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c:49: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c:29: /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c: In function 'insertHashRF': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c:332:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(e->bitVector), PLL_BYTE_ALIGNMENT, (size_t)vectorLength * sizeof(unsigned int)); ^~~~~~~~~~~~~~~~~~ [ 14%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxscharactersblock.cpp [ 15%] Linking C static library libsprng.a cd /build/iqtree-1.6.9+dfsg/build.omp/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.omp/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 /usr/bin/ar qc libsprng.a CMakeFiles/sprng.dir/lcg64.c.o CMakeFiles/sprng.dir/makeseed.c.o CMakeFiles/sprng.dir/memory.c.o CMakeFiles/sprng.dir/store.c.o CMakeFiles/sprng.dir/primes-lcg64.c.o CMakeFiles/sprng.dir/checkid.c.o /usr/bin/ranlib libsprng.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 15%] Built target sprng [ 15%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdatablock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdatablock.cpp [ 15%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/eigen_sym.c.o -c /build/iqtree-1.6.9+dfsg/whtest/eigen_sym.c [ 15%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/evaluateGenericSpecial.c [ 16%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdiscretedatum.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/evaluateGenericSpecial.c:46: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 17%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/random.c.o -c /build/iqtree-1.6.9+dfsg/whtest/random.c [ 18%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/weisslambda.c.o -c /build/iqtree-1.6.9+dfsg/whtest/weisslambda.c [ 18%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/weisslambda_sub.c.o -c /build/iqtree-1.6.9+dfsg/whtest/weisslambda_sub.c [ 19%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdiscretematrix.cpp [ 19%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdistancedatum.cpp [ 20%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest.c.o -c /build/iqtree-1.6.9+dfsg/whtest/whtest.c [ 21%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/msplitsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/msplitsblock.cpp [ 22%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c In file included from /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:45: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:31: /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRCAT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:1175:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 4 * mxtips); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRGAMMA': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:1017:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 16 * mxtips); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRCATPROT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:1326:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 20 * mxtips); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRGAMMAPROT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:936:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 80 * mxtips); ^~~~~~~~~~~~~~~~~~ [ 22%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest_sub.c.o -c /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c: In function 'ReadData': /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c:205:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( ifp, "%c", &c ); ^~~~~~~~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c:221:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( ifp, "%c", &c ); ^~~~~~~~~~~~~~~~~~~~~~~~ [ 23%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdistancesblock.cpp [ 24%] Linking CXX static library liblbfgsb.a cd /build/iqtree-1.6.9+dfsg/build.omp/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.omp/lbfgsb && /usr/bin/cmake -E cmake_link_script CMakeFiles/lbfgsb.dir/link.txt --verbose=1 [ 24%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsemptyblock.cpp /usr/bin/ar qc liblbfgsb.a CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o [ 25%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/fastDNAparsimony.c.o -c /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c /usr/bin/ranlib liblbfgsb.a [ 26%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsexception.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsexception.cpp make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 26%] Built target lbfgsb make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/utils /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/utils /build/iqtree-1.6.9+dfsg/build.omp/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= In file included from /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:113: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:29: /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c: In function 'compressDNA': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:1692:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &(pr->partitionData[model]->parsVect), PLL_BYTE_ALIGNMENT, (size_t)compressedEntriesPadded * states * totalNodes * sizeof(parsimonyNumber)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:1768:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); ^~~~~~~~~~~~~~~~~~ Scanning dependencies of target utils make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 26%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/eigendecomposition.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/eigendecomposition.cpp [ 27%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/whtest && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -c /build/iqtree-1.6.9+dfsg/whtest/whtest_wrapper.cpp [ 28%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/modelsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/modelsblock.cpp [ 29%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsreader.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsreader.cpp [ 29%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/hardware.c.o -c /build/iqtree-1.6.9+dfsg/pll/hardware.c /build/iqtree-1.6.9+dfsg/pll/hardware.c: In function 'pll_probe_cpu': /build/iqtree-1.6.9+dfsg/pll/hardware.c:93:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf (fd, "%d", &id); ^~~~~~~~~~~~~~~~~~~~~~ [ 30%] Building C object pll/CMakeFiles/pll.dir/hash.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/hash.c.o -c /build/iqtree-1.6.9+dfsg/pll/hash.c [ 30%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxssetreader.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxssetreader.cpp [ 30%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/lexer.c.o -c /build/iqtree-1.6.9+dfsg/pll/lexer.c [ 31%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c In file included from /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:44: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:29: /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c: In function 'coreGTRCAT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:2699:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 4 * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c: In function 'coreGTRCATPROT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:3074:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 20 * sizeof(double)); ^~~~~~~~~~~~~~~~~~ [ 32%] Linking CXX static library libwhtest.a cd /build/iqtree-1.6.9+dfsg/build.omp/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+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 '/build/iqtree-1.6.9+dfsg/build.omp' [ 32%] Built target whtest [ 33%] Building C object pll/CMakeFiles/pll.dir/models.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/models.c.o -c /build/iqtree-1.6.9+dfsg/pll/models.c [ 33%] Building C object pll/CMakeFiles/pll.dir/newick.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/newick.c.o -c /build/iqtree-1.6.9+dfsg/pll/newick.c In file included from /build/iqtree-1.6.9+dfsg/pll/models.c:53: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/newick.c:36: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 34%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/newviewGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c [ 35%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsstring.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsstring.cpp [ 36%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/gzstream.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/gzstream.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:49: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:32: /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c: In function 'pllNewviewIterative': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:2763:13: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&x3_start, PLL_BYTE_ALIGNMENT, requiredLength); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:2792:17: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&ex3, PLL_BYTE_ALIGNMENT, requiredExpLength); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c: In function 'newviewAncestralIterative': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:3730:11: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c: In function 'pllGetCLV': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:3800:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof (double)); ^~~~~~~~~~~~~~~~~~ [ 36%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o [ 36%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/genericParallelization.c.o -c /build/iqtree-1.6.9+dfsg/pll/genericParallelization.c cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstaxablock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstaxablock.cpp [ 36%] Linking CXX static library libnclextra.a cd /build/iqtree-1.6.9+dfsg/build.omp/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.omp/nclextra && /usr/bin/cmake -E cmake_link_script CMakeFiles/nclextra.dir/link.txt --verbose=1 In file included from /build/iqtree-1.6.9+dfsg/pll/genericParallelization.c:43: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ /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 [ 37%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstoken.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstoken.cpp /usr/bin/ranlib libnclextra.a [ 37%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/optimization.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/optimization.cpp make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 37%] Built target nclextra make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pda /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/pda /build/iqtree-1.6.9+dfsg/build.omp/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= [ 38%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/optimizeModel.c.o -c /build/iqtree-1.6.9+dfsg/pll/optimizeModel.c Scanning dependencies of target pda make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 39%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/circularnetwork.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/circularnetwork.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/optimizeModel.c:47: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 40%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstreesblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstreesblock.cpp [ 41%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/stoprule.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/stoprule.cpp [ 42%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/parsePartition.c.o -c /build/iqtree-1.6.9+dfsg/pll/parsePartition.c In file included from /build/iqtree-1.6.9+dfsg/pll/parsePartition.c:42: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 42%] Building C object pll/CMakeFiles/pll.dir/queue.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/queue.c.o -c /build/iqtree-1.6.9+dfsg/pll/queue.c [ 43%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/tools.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/tools.cpp [ 44%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/randomTree.c.o -c /build/iqtree-1.6.9+dfsg/pll/randomTree.c In file included from /build/iqtree-1.6.9+dfsg/pll/randomTree.c:37: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 44%] Building C object pll/CMakeFiles/pll.dir/recom.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/recom.c.o -c /build/iqtree-1.6.9+dfsg/pll/recom.c In file included from /build/iqtree-1.6.9+dfsg/pll/recom.c:43: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 45%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/restartHashTable.c.o -c /build/iqtree-1.6.9+dfsg/pll/restartHashTable.c [ 46%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/searchAlgo.c.o -c /build/iqtree-1.6.9+dfsg/pll/searchAlgo.c In file included from /build/iqtree-1.6.9+dfsg/pll/restartHashTable.c:47: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 46%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/ssort.c.o -c /build/iqtree-1.6.9+dfsg/pll/ssort.c In file included from /build/iqtree-1.6.9+dfsg/pll/searchAlgo.c:51: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 47%] Building C object pll/CMakeFiles/pll.dir/stack.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/stack.c.o -c /build/iqtree-1.6.9+dfsg/pll/stack.c [ 47%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/topologies.c.o -c /build/iqtree-1.6.9+dfsg/pll/topologies.c [ 47%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/greedy.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/greedy.cpp [ 48%] Building C object pll/CMakeFiles/pll.dir/trash.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/trash.c.o -c /build/iqtree-1.6.9+dfsg/pll/trash.c In file included from /build/iqtree-1.6.9+dfsg/pll/topologies.c:48: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/trash.c:48: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 49%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/treeIO.c.o -c /build/iqtree-1.6.9+dfsg/pll/treeIO.c In file included from /build/iqtree-1.6.9+dfsg/pll/treeIO.c:49: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 49%] Building C object pll/CMakeFiles/pll.dir/utils.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/utils.c.o -c /build/iqtree-1.6.9+dfsg/pll/utils.c [ 50%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/gurobiwrapper.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/gurobiwrapper.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/utils.c:70: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:16, from /build/iqtree-1.6.9+dfsg/pll/utils.c:70: /build/iqtree-1.6.9+dfsg/pll/utils.c: In function 'initializePartitionData': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:588:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->left), PLL_BYTE_ALIGNMENT, (size_t)pl->leftLength * (maxCategories + 1) * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:589:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->right), PLL_BYTE_ALIGNMENT, (size_t)pl->rightLength * (maxCategories + 1) * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:591:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV), PLL_BYTE_ALIGNMENT, (size_t)pl->evLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:597:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector), PLL_BYTE_ALIGNMENT, (size_t)pl->tipVectorLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:609:15: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV_LG4[k]), PLL_BYTE_ALIGNMENT, pl->evLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:613:15: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector_LG4[k]), PLL_BYTE_ALIGNMENT, pl->tipVectorLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:679:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->sumBuffer), PLL_BYTE_ALIGNMENT, width * ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:686:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->perSiteLikelihoods), PLL_BYTE_ALIGNMENT, width * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:716:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->ancestralBuffer), PLL_BYTE_ALIGNMENT, width * ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:736:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->wgt), PLL_BYTE_ALIGNMENT, width * sizeof(int)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:748:11: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->gapColumn),PLL_BYTE_ALIGNMENT, ((size_t)localTree->mxtips) * ^~~~~~~~~~~~~~~~~~ [ 51%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o [ 50%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/hashsplitset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/hashsplitset.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pdnetwork.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdnetwork.cpp [ 52%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pruning.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pruning.cpp [ 52%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/split.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/split.cpp [ 53%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/splitgraph.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/splitgraph.cpp [ 54%] Linking C static library libpll.a cd /build/iqtree-1.6.9+dfsg/build.omp/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+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 [ 54%] Linking CXX static library libncl.a cd /build/iqtree-1.6.9+dfsg/build.omp/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake /usr/bin/ranlib libpll.a cd /build/iqtree-1.6.9+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 make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 54%] Built target pll [ 55%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/splitset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/splitset.cpp /usr/bin/ranlib libncl.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 55%] Built target ncl make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/alignment /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/alignment /build/iqtree-1.6.9+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= [ 55%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/lpwrapper.c.o -c /build/iqtree-1.6.9+dfsg/pda/lpwrapper.c Scanning dependencies of target alignment make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 55%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/pattern.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/pattern.cpp [ 56%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/ecopd.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/ecopd.cpp [ 56%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/graph.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/graph.cpp [ 57%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pdtree.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdtree.cpp [ 57%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pdtreeset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdtreeset.cpp [ 57%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/pllnni.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/pllnni.cpp [ 58%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/ecopdmtreeset.cpp [ 59%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/alignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/alignment.cpp [ 60%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/checkpoint.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/checkpoint.cpp /build/iqtree-1.6.9+dfsg/alignment/alignment.cpp:2925:92: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void convert_range(const char *str, int &lower, int &upper, int &step_size, char* &endptr) throw (string) { ^~~~~ [ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/alignmentpairwise.cpp [ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/maalignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/maalignment.cpp [ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/superalignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignment.cpp [ 61%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/MPIHelper.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/MPIHelper.cpp [ 62%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignmentpairwise.cpp [ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignmentpairwiseplen.cpp [ 64%] Linking CXX static library libutils.a cd /build/iqtree-1.6.9+dfsg/build.omp/utils && /usr/bin/cmake -P CMakeFiles/utils.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.omp/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/utils.dir/link.txt --verbose=1 /usr/bin/ar qc libutils.a CMakeFiles/utils.dir/eigendecomposition.cpp.o CMakeFiles/utils.dir/gzstream.cpp.o CMakeFiles/utils.dir/optimization.cpp.o CMakeFiles/utils.dir/stoprule.cpp.o CMakeFiles/utils.dir/tools.cpp.o CMakeFiles/utils.dir/pllnni.cpp.o CMakeFiles/utils.dir/checkpoint.cpp.o CMakeFiles/utils.dir/MPIHelper.cpp.o /usr/bin/ranlib libutils.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 64%] Built target utils make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/model /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/model /build/iqtree-1.6.9+dfsg/build.omp/model/CMakeFiles/model.dir/DependInfo.cmake --color= [ 65%] Linking CXX static library libpda.a cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.omp/pda && /usr/bin/cmake -E cmake_link_script CMakeFiles/pda.dir/link.txt --verbose=1 /usr/bin/ar qc libpda.a CMakeFiles/pda.dir/circularnetwork.cpp.o CMakeFiles/pda.dir/greedy.cpp.o CMakeFiles/pda.dir/gurobiwrapper.cpp.o CMakeFiles/pda.dir/hashsplitset.cpp.o CMakeFiles/pda.dir/pdnetwork.cpp.o CMakeFiles/pda.dir/pruning.cpp.o CMakeFiles/pda.dir/split.cpp.o CMakeFiles/pda.dir/splitgraph.cpp.o CMakeFiles/pda.dir/splitset.cpp.o CMakeFiles/pda.dir/lpwrapper.c.o CMakeFiles/pda.dir/ecopd.cpp.o CMakeFiles/pda.dir/graph.cpp.o CMakeFiles/pda.dir/pdtree.cpp.o CMakeFiles/pda.dir/pdtreeset.cpp.o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o Scanning dependencies of target model make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 66%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelbin.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelbin.cpp [ 66%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o [ 67%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelmarkov.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modeldna.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modeldna.cpp [ 67%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelset.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelset.cpp [ 67%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelfactory.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp [ 68%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelprotein.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp /usr/bin/ranlib libpda.a In file included from /build/iqtree-1.6.9+dfsg/model/modelprotein.h:23, from /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:634:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelProtein::readRates(istream &in) throw(const char*, string) { ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.9+dfsg/model/modeldna.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.cpp:20: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modeldna.cpp:240:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelDNA::readRates(string str) throw(const char*) { ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelbin.h:23, from /build/iqtree-1.6.9+dfsg/model/modelbin.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:24: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:26: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:27: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:30: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelset.h:23, from /build/iqtree-1.6.9+dfsg/model/modelset.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 68%] Built target pda [ 69%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelsubst.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelsubst.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/partitionmodel.cpp.o -c /build/iqtree-1.6.9+dfsg/model/partitionmodel.cpp /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:997:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readRates(istream &in) throw(const char*, string) { ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:1052:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readRates(string str) throw(const char*) { ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:1081:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readStateFreq(istream &in) throw(const char*) { ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:1095:45: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readStateFreq(string str) throw(const char*) { ^~~~~ [ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/partitionmodelplen.cpp.o -c /build/iqtree-1.6.9+dfsg/model/partitionmodelplen.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rategamma.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rategamma.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rategammainvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rategammainvar.cpp [ 72%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateheterogeneity.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterogeneity.cpp [ 73%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateinvar.cpp [ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerdiscrete.cpp [ 74%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerhaeseler.cpp [ 74%] Building CXX object model/CMakeFiles/model.dir/ratekategory.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratekategory.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratekategory.cpp [ 75%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratefree.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratefree.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratefreeinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratefreeinvar.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateheterotachy.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterotachy.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterotachyinvar.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelcodon.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelcodon.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelmorphology.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.9+dfsg/model/ratefree.cpp:13: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 78%] Building CXX object model/CMakeFiles/model.dir/modelmixture.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelmixture.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelcodon.h:11, from /build/iqtree-1.6.9+dfsg/model/modelcodon.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 79%] Building CXX object model/CMakeFiles/model.dir/modelunrest.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelunrest.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelunrest.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:9: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:10: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:13: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:11, from /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp:44:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMorphology::readRates(istream &in) throw(const char*, string) { ^~~~~ [ 80%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelliemarkov.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelliemarkov.cpp [ 80%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o [ 81%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelpomo.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelpomo.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelpomomixture.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelpomomixture.cpp [ 81%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelfactorymixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelfactorymixlen.cpp [ 81%] Linking CXX static library libalignment.a cd /build/iqtree-1.6.9+dfsg/build.omp/alignment && /usr/bin/cmake -P CMakeFiles/alignment.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.omp/alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/alignment.dir/link.txt --verbose=1 In file included from /build/iqtree-1.6.9+dfsg/model/modelunrest.h:11, from /build/iqtree-1.6.9+dfsg/model/modelunrest.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ /usr/bin/ar qc libalignment.a CMakeFiles/alignment.dir/pattern.cpp.o CMakeFiles/alignment.dir/alignment.cpp.o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o CMakeFiles/alignment.dir/maalignment.cpp.o CMakeFiles/alignment.dir/superalignment.cpp.o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomo.cpp:1: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomo.cpp:1: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.h:14, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.cpp:9: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.h:14, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.cpp:9: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /usr/bin/ranlib libalignment.a In file included from /build/iqtree-1.6.9+dfsg/model/modelliemarkov.h:11, from /build/iqtree-1.6.9+dfsg/model/modelliemarkov.cpp:25: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 81%] Built target alignment In file included from /build/iqtree-1.6.9+dfsg/model/modelfactorymixlen.cpp:12: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 82%] Linking CXX static library libkernelsse.a /usr/bin/cmake -P CMakeFiles/kernelsse.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/kernelsse.dir/link.txt --verbose=1 /usr/bin/ar qc libkernelsse.a CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o /usr/bin/ranlib libkernelsse.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 82%] Built target kernelsse [ 83%] Linking CXX static library libmodel.a cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/cmake -P CMakeFiles/model.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.omp/model && /usr/bin/cmake -E cmake_link_script CMakeFiles/model.dir/link.txt --verbose=1 /usr/bin/ar qc libmodel.a CMakeFiles/model.dir/modelmarkov.cpp.o CMakeFiles/model.dir/modelbin.cpp.o CMakeFiles/model.dir/modeldna.cpp.o CMakeFiles/model.dir/modelfactory.cpp.o CMakeFiles/model.dir/modelprotein.cpp.o CMakeFiles/model.dir/modelset.cpp.o CMakeFiles/model.dir/modelsubst.cpp.o CMakeFiles/model.dir/partitionmodel.cpp.o CMakeFiles/model.dir/partitionmodelplen.cpp.o CMakeFiles/model.dir/rategamma.cpp.o CMakeFiles/model.dir/rategammainvar.cpp.o CMakeFiles/model.dir/rateheterogeneity.cpp.o CMakeFiles/model.dir/rateinvar.cpp.o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o CMakeFiles/model.dir/ratekategory.cpp.o CMakeFiles/model.dir/ratefree.cpp.o CMakeFiles/model.dir/ratefreeinvar.cpp.o CMakeFiles/model.dir/rateheterotachy.cpp.o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o CMakeFiles/model.dir/modelcodon.cpp.o CMakeFiles/model.dir/modelmorphology.cpp.o CMakeFiles/model.dir/modelmixture.cpp.o CMakeFiles/model.dir/modelunrest.cpp.o CMakeFiles/model.dir/modelliemarkov.cpp.o CMakeFiles/model.dir/modelpomo.cpp.o CMakeFiles/model.dir/modelpomomixture.cpp.o CMakeFiles/model.dir/modelfactorymixlen.cpp.o /usr/bin/ranlib libmodel.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 83%] Built target model make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/tree /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/tree /build/iqtree-1.6.9+dfsg/build.omp/tree/CMakeFiles/tree.dir/DependInfo.cmake --color= Scanning dependencies of target tree make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 87%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/memslot.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/memslot.cpp [ 86%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o [ 87%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o [ 85%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o [ 87%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.cpp.o [ 87%] Building CXX object tree/CMakeFiles/tree.dir/constrainttree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/constrainttree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/constrainttree.cpp [ 87%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o [ 88%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o [ 89%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o [ 88%] Building CXX object tree/CMakeFiles/tree.dir/ncbitree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/candidateset.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/candidateset.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/iqtree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/iqtree.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/matree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/matree.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/mexttree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mexttree.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/mtree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mtree.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/mtreeset.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mtreeset.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/ncbitree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/ncbitree.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/node.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/node.cpp In file included from /build/iqtree-1.6.9+dfsg/tree/iqtree.cpp:29: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 89%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylonode.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylonode.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylonodemixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylonodemixlen.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylosupertree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertree.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertreeplen.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotreemixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreemixlen.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o [ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotreepars.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreepars.cpp cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotreesse.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreesse.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp:34: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.9+dfsg/tree/phylotreemixlen.cpp:12: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 94%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/quartet.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/quartet.cpp In file included from /build/iqtree-1.6.9+dfsg/tree/phylotreesse.cpp:35: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp: In member function 'virtual int PhyloTree::getNumLhCat(SiteLoglType)': /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp:1202:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ [ 95%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/supernode.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/supernode.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/tinatree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/tinatree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/tinatree.cpp [ 96%] Building CXX object tree/CMakeFiles/tree.dir/parstree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/parstree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/parstree.cpp [ 97%] Linking CXX static library libtree.a cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/cmake -P CMakeFiles/tree.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.omp/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree.dir/link.txt --verbose=1 /usr/bin/ar qc libtree.a CMakeFiles/tree.dir/constrainttree.cpp.o CMakeFiles/tree.dir/candidateset.cpp.o CMakeFiles/tree.dir/iqtree.cpp.o CMakeFiles/tree.dir/matree.cpp.o CMakeFiles/tree.dir/memslot.cpp.o CMakeFiles/tree.dir/mexttree.cpp.o CMakeFiles/tree.dir/mtree.cpp.o CMakeFiles/tree.dir/mtreeset.cpp.o CMakeFiles/tree.dir/ncbitree.cpp.o CMakeFiles/tree.dir/node.cpp.o CMakeFiles/tree.dir/phylonode.cpp.o CMakeFiles/tree.dir/phylonodemixlen.cpp.o CMakeFiles/tree.dir/phylosupertree.cpp.o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o CMakeFiles/tree.dir/phylotree.cpp.o CMakeFiles/tree.dir/phylotreemixlen.cpp.o CMakeFiles/tree.dir/phylotreepars.cpp.o CMakeFiles/tree.dir/phylotreesse.cpp.o CMakeFiles/tree.dir/quartet.cpp.o CMakeFiles/tree.dir/supernode.cpp.o CMakeFiles/tree.dir/tinatree.cpp.o CMakeFiles/tree.dir/parstree.cpp.o /usr/bin/ranlib libtree.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 97%] Built target tree make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/CMakeFiles/iqtree.dir/DependInfo.cmake --color= Scanning dependencies of target iqtree make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 99%] Building CXX object CMakeFiles/iqtree.dir/main/phylotesting.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/main/phylotesting.cpp.o -c /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp [ 99%] Building CXX object CMakeFiles/iqtree.dir/main/main.cpp.o [ 99%] Building CXX object CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o [100%] Building CXX object CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/main/main.cpp.o -c /build/iqtree-1.6.9+dfsg/main/main.cpp /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o -c /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.omp -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o -c /build/iqtree-1.6.9+dfsg/obsolete/parsmultistate.cpp /build/iqtree-1.6.9+dfsg/main/main.cpp:235:58: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] out << " " << 8*sizeof(void*) << "-bit" << " built " << __DATE__; ^~~~~~~~ /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:862:52: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] << "." << iqtree_VERSION_PATCH << " built " << __DATE__ << endl ^~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:35: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:36: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:44: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:21: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:30: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:33: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp: In function 'std::__cxx11::string getSeqTypeName(SeqType)': /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:164:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ [100%] Linking CXX executable iqtree /usr/bin/cmake -E cmake_link_script CMakeFiles/iqtree.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -Wl,-z,relro -Wl,-z,now -rdynamic -rdynamic CMakeFiles/iqtree.dir/main/main.cpp.o CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o CMakeFiles/iqtree.dir/main/phylotesting.cpp.o CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o -o iqtree -L/build/iqtree-1.6.9+dfsg/lib32 -Wl,-rpath,/build/iqtree-1.6.9+dfsg/lib32: pll/libpll.a ncl/libncl.a nclextra/libnclextra.a utils/libutils.a pda/libpda.a lbfgsb/liblbfgsb.a whtest/libwhtest.a sprng/libsprng.a vectorclass/libvectorclass.a model/libmodel.a gsl/libgsl.a alignment/libalignment.a tree/libtree.a -lm libkernelsse.a nclextra/libnclextra.a pll/libpll.a model/libmodel.a utils/libutils.a lbfgsb/liblbfgsb.a -lz alignment/libalignment.a ncl/libncl.a gsl/libgsl.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [100%] Built target iqtree make[3]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.omp/CMakeFiles 0 make[2]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' # restore the old naming to avoid name space conflict with serial build if [ -x build.omp/iqtree ] ; then mv build.omp/iqtree build.omp/iqtree-omp ; fi dh_auto_build -Bbuild.serial cd build.serial && make -j10 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' /usr/bin/cmake -S/build/iqtree-1.6.9+dfsg -B/build/iqtree-1.6.9+dfsg/build.serial --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.serial/CMakeFiles /build/iqtree-1.6.9+dfsg/build.serial/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/depend make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/depend make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/depend make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pll /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/pll /build/iqtree-1.6.9+dfsg/build.serial/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/ncl /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/ncl /build/iqtree-1.6.9+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/gsl /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/gsl /build/iqtree-1.6.9+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/lbfgsb /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/lbfgsb /build/iqtree-1.6.9+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/whtest /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/whtest /build/iqtree-1.6.9+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/sprng /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/sprng /build/iqtree-1.6.9+dfsg/build.serial/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/nclextra /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/nclextra /build/iqtree-1.6.9+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/vectorclass /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/vectorclass /build/iqtree-1.6.9+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= Scanning dependencies of target vectorclass Scanning dependencies of target lbfgsb make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 0%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/lbfgsb && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -c /build/iqtree-1.6.9+dfsg/lbfgsb/lbfgsb_new.cpp [ 1%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/vectorclass && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -c /build/iqtree-1.6.9+dfsg/vectorclass/instrset_detect.cpp Scanning dependencies of target sprng make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build Scanning dependencies of target gsl make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 1%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/lcg64.c.o -c /build/iqtree-1.6.9+dfsg/sprng/lcg64.c [ 2%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o [ 3%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/binomial_tpe.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/binomial_tpe.cpp [ 3%] Linking CXX static library libvectorclass.a cd /build/iqtree-1.6.9+dfsg/build.serial/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/makeseed.c.o -c /build/iqtree-1.6.9+dfsg/sprng/makeseed.c Scanning dependencies of target kernelsse make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build Scanning dependencies of target nclextra make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 4%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/mpdablock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/mpdablock.cpp Scanning dependencies of target whtest cd /build/iqtree-1.6.9+dfsg/build.serial/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 [ 5%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylokernelsse.cpp make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' Scanning dependencies of target ncl make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' /usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o [ 6%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/eigen.c.o -c /build/iqtree-1.6.9+dfsg/whtest/eigen.c /usr/bin/ranlib libvectorclass.a Scanning dependencies of target pll make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 7%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsassumptionsblock.cpp [ 7%] Built target vectorclass [ 7%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/alignment.c.o -c /build/iqtree-1.6.9+dfsg/pll/alignment.c [ 7%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsblock.cpp [ 8%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/memory.c.o -c /build/iqtree-1.6.9+dfsg/sprng/memory.c In file included from /build/iqtree-1.6.9+dfsg/pll/alignment.c:40: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 8%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o [ 8%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o [ 9%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/multinomial.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/multinomial.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/store.c.o -c /build/iqtree-1.6.9+dfsg/sprng/store.c cd /build/iqtree-1.6.9+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/primes-lcg64.c.o -c /build/iqtree-1.6.9+dfsg/sprng/primes-lcg64.c [ 10%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o [ 10%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/checkid.c.o -c /build/iqtree-1.6.9+dfsg/sprng/checkid.c cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/bipartitionList.c.o -c /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c [ 10%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/evaluateGenericSpecial.c [ 11%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/pow_int.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/pow_int.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c:49: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c:29: /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c: In function 'insertHashRF': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c:332:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(e->bitVector), PLL_BYTE_ALIGNMENT, (size_t)vectorLength * sizeof(unsigned int)); ^~~~~~~~~~~~~~~~~~ [ 12%] Linking C static library libsprng.a In file included from /build/iqtree-1.6.9+dfsg/pll/evaluateGenericSpecial.c:46: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ cd /build/iqtree-1.6.9+dfsg/build.serial/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 /usr/bin/ar qc libsprng.a CMakeFiles/sprng.dir/lcg64.c.o CMakeFiles/sprng.dir/makeseed.c.o CMakeFiles/sprng.dir/memory.c.o CMakeFiles/sprng.dir/store.c.o CMakeFiles/sprng.dir/primes-lcg64.c.o CMakeFiles/sprng.dir/checkid.c.o [ 13%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gauss.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/gauss.cpp [ 14%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxscharactersblock.cpp /usr/bin/ranlib libsprng.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 15%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c [ 15%] Built target sprng [ 15%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gaussinv.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/gaussinv.cpp [ 15%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/msetsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/msetsblock.cpp [ 15%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/eigen_sym.c.o -c /build/iqtree-1.6.9+dfsg/whtest/eigen_sym.c In file included from /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:45: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:31: /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRCAT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:1175:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 4 * mxtips); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRGAMMA': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:1017:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 16 * mxtips); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRCATPROT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:1326:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 20 * mxtips); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRGAMMAPROT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:936:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 80 * mxtips); ^~~~~~~~~~~~~~~~~~ [ 16%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gausspdf.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/gausspdf.cpp [ 17%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/random.c.o -c /build/iqtree-1.6.9+dfsg/whtest/random.c [ 17%] Linking CXX static library libgsl.a cd /build/iqtree-1.6.9+dfsg/build.serial/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/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 [ 18%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/fastDNAparsimony.c.o -c /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 18%] Built target gsl [ 18%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/hardware.c.o -c /build/iqtree-1.6.9+dfsg/pll/hardware.c [ 19%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/msplitsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/msplitsblock.cpp /build/iqtree-1.6.9+dfsg/pll/hardware.c: In function 'pll_probe_cpu': /build/iqtree-1.6.9+dfsg/pll/hardware.c:93:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf (fd, "%d", &id); ^~~~~~~~~~~~~~~~~~~~~~ [ 20%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/weisslambda.c.o -c /build/iqtree-1.6.9+dfsg/whtest/weisslambda.c In file included from /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:113: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:29: /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c: In function 'compressDNA': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:1692:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &(pr->partitionData[model]->parsVect), PLL_BYTE_ALIGNMENT, (size_t)compressedEntriesPadded * states * totalNodes * sizeof(parsimonyNumber)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:1768:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); ^~~~~~~~~~~~~~~~~~ [ 21%] Building C object pll/CMakeFiles/pll.dir/hash.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/hash.c.o -c /build/iqtree-1.6.9+dfsg/pll/hash.c [ 21%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/weisslambda_sub.c.o -c /build/iqtree-1.6.9+dfsg/whtest/weisslambda_sub.c [ 22%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o [ 21%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest.c.o -c /build/iqtree-1.6.9+dfsg/whtest/whtest.c cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/lexer.c.o -c /build/iqtree-1.6.9+dfsg/pll/lexer.c [ 24%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o [ 23%] Linking CXX static library liblbfgsb.a cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c cd /build/iqtree-1.6.9+dfsg/build.serial/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/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 [ 25%] Building C object pll/CMakeFiles/pll.dir/models.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/models.c.o -c /build/iqtree-1.6.9+dfsg/pll/models.c make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' In file included from /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:44: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:29: /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c: In function 'coreGTRCAT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:2699:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 4 * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c: In function 'coreGTRCATPROT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:3074:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 20 * sizeof(double)); ^~~~~~~~~~~~~~~~~~ [ 25%] Built target lbfgsb make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/utils /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/utils /build/iqtree-1.6.9+dfsg/build.serial/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= [ 26%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o [ 26%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdatablock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdatablock.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/modelsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/modelsblock.cpp [ 26%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest_sub.c.o -c /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c In file included from /build/iqtree-1.6.9+dfsg/pll/models.c:53: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c: In function 'ReadData': /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c:205:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( ifp, "%c", &c ); ^~~~~~~~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c:221:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( ifp, "%c", &c ); ^~~~~~~~~~~~~~~~~~~~~~~~ Scanning dependencies of target utils make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 26%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/eigendecomposition.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/eigendecomposition.cpp [ 27%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdiscretedatum.cpp [ 28%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/whtest && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -c /build/iqtree-1.6.9+dfsg/whtest/whtest_wrapper.cpp [ 28%] Building C object pll/CMakeFiles/pll.dir/newick.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/newick.c.o -c /build/iqtree-1.6.9+dfsg/pll/newick.c [ 29%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdiscretematrix.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/newick.c:36: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 30%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o [ 29%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/newviewGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdistancedatum.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:49: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:32: /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c: In function 'pllNewviewIterative': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:2763:13: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&x3_start, PLL_BYTE_ALIGNMENT, requiredLength); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:2792:17: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&ex3, PLL_BYTE_ALIGNMENT, requiredExpLength); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c: In function 'newviewAncestralIterative': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:3730:11: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c: In function 'pllGetCLV': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:3800:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof (double)); ^~~~~~~~~~~~~~~~~~ [ 31%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdistancesblock.cpp [ 31%] Linking CXX static library libnclextra.a cd /build/iqtree-1.6.9+dfsg/build.serial/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/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 [ 32%] Linking CXX static library libwhtest.a [ 31%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsemptyblock.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/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 libnclextra.a /usr/bin/ranlib libwhtest.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 33%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsexception.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsexception.cpp [ 33%] Built target whtest [ 33%] Built target nclextra make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pda /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/pda /build/iqtree-1.6.9+dfsg/build.serial/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= [ 33%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/genericParallelization.c.o -c /build/iqtree-1.6.9+dfsg/pll/genericParallelization.c Scanning dependencies of target pda make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' In file included from /build/iqtree-1.6.9+dfsg/pll/genericParallelization.c:43: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 34%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/circularnetwork.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/circularnetwork.cpp [ 35%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsreader.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsreader.cpp [ 36%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/gzstream.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/gzstream.cpp [ 37%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/optimizeModel.c.o -c /build/iqtree-1.6.9+dfsg/pll/optimizeModel.c [ 38%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/parsePartition.c.o -c /build/iqtree-1.6.9+dfsg/pll/parsePartition.c [ 38%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxssetreader.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxssetreader.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/optimizeModel.c:47: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/parsePartition.c:42: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 38%] Building C object pll/CMakeFiles/pll.dir/queue.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/queue.c.o -c /build/iqtree-1.6.9+dfsg/pll/queue.c [ 39%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsstring.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsstring.cpp [ 40%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o [ 39%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/randomTree.c.o -c /build/iqtree-1.6.9+dfsg/pll/randomTree.c cd /build/iqtree-1.6.9+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/optimization.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/optimization.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/randomTree.c:37: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 40%] Building C object pll/CMakeFiles/pll.dir/recom.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/recom.c.o -c /build/iqtree-1.6.9+dfsg/pll/recom.c In file included from /build/iqtree-1.6.9+dfsg/pll/recom.c:43: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 40%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstaxablock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstaxablock.cpp [ 41%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o [ 42%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/restartHashTable.c.o -c /build/iqtree-1.6.9+dfsg/pll/restartHashTable.c cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstoken.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstoken.cpp [ 43%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o [ 43%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/greedy.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/greedy.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/searchAlgo.c.o -c /build/iqtree-1.6.9+dfsg/pll/searchAlgo.c [ 43%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/ssort.c.o -c /build/iqtree-1.6.9+dfsg/pll/ssort.c In file included from /build/iqtree-1.6.9+dfsg/pll/restartHashTable.c:47: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/searchAlgo.c:51: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 44%] Building C object pll/CMakeFiles/pll.dir/stack.c.o [ 44%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/stack.c.o -c /build/iqtree-1.6.9+dfsg/pll/stack.c cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/topologies.c.o -c /build/iqtree-1.6.9+dfsg/pll/topologies.c [ 45%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstreesblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstreesblock.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/topologies.c:48: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 46%] Building C object pll/CMakeFiles/pll.dir/trash.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/trash.c.o -c /build/iqtree-1.6.9+dfsg/pll/trash.c [ 47%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/treeIO.c.o -c /build/iqtree-1.6.9+dfsg/pll/treeIO.c In file included from /build/iqtree-1.6.9+dfsg/pll/trash.c:48: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 47%] Building C object pll/CMakeFiles/pll.dir/utils.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/utils.c.o -c /build/iqtree-1.6.9+dfsg/pll/utils.c [ 48%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o [ 49%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/gurobiwrapper.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/gurobiwrapper.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/stoprule.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/stoprule.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/treeIO.c:49: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 50%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/tools.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/tools.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/utils.c:70: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:16, from /build/iqtree-1.6.9+dfsg/pll/utils.c:70: /build/iqtree-1.6.9+dfsg/pll/utils.c: In function 'initializePartitionData': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:588:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->left), PLL_BYTE_ALIGNMENT, (size_t)pl->leftLength * (maxCategories + 1) * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:589:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->right), PLL_BYTE_ALIGNMENT, (size_t)pl->rightLength * (maxCategories + 1) * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:591:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV), PLL_BYTE_ALIGNMENT, (size_t)pl->evLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:597:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector), PLL_BYTE_ALIGNMENT, (size_t)pl->tipVectorLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:609:15: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV_LG4[k]), PLL_BYTE_ALIGNMENT, pl->evLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:613:15: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector_LG4[k]), PLL_BYTE_ALIGNMENT, pl->tipVectorLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:679:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->sumBuffer), PLL_BYTE_ALIGNMENT, width * ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:686:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->perSiteLikelihoods), PLL_BYTE_ALIGNMENT, width * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:716:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->ancestralBuffer), PLL_BYTE_ALIGNMENT, width * ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:736:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->wgt), PLL_BYTE_ALIGNMENT, width * sizeof(int)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:748:11: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->gapColumn),PLL_BYTE_ALIGNMENT, ((size_t)localTree->mxtips) * ^~~~~~~~~~~~~~~~~~ [ 50%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/pllnni.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/pllnni.cpp [ 51%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o [ 50%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/hashsplitset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/hashsplitset.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pdnetwork.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdnetwork.cpp [ 52%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pruning.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pruning.cpp [ 52%] Linking CXX static library libncl.a cd /build/iqtree-1.6.9+dfsg/build.serial/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/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 [ 53%] Linking C static library libpll.a cd /build/iqtree-1.6.9+dfsg/build.serial/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/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 [ 53%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/split.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/split.cpp /usr/bin/ranlib libncl.a /usr/bin/ranlib libpll.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 53%] Built target ncl [ 53%] Built target pll make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/alignment /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/alignment /build/iqtree-1.6.9+dfsg/build.serial/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= [ 54%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/splitgraph.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/splitgraph.cpp [ 55%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/splitset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/splitset.cpp [ 55%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/lpwrapper.c.o -c /build/iqtree-1.6.9+dfsg/pda/lpwrapper.c Scanning dependencies of target alignment make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 55%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/pattern.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/pattern.cpp [ 56%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/alignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/alignment.cpp [ 57%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/ecopd.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/ecopd.cpp [ 57%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/alignmentpairwise.cpp /build/iqtree-1.6.9+dfsg/alignment/alignment.cpp:2925:92: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void convert_range(const char *str, int &lower, int &upper, int &step_size, char* &endptr) throw (string) { ^~~~~ [ 58%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/checkpoint.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/checkpoint.cpp [ 58%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/graph.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/graph.cpp [ 58%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o [ 59%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/MPIHelper.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/MPIHelper.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pdtree.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdtree.cpp [ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/maalignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/maalignment.cpp [ 60%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pdtreeset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdtreeset.cpp [ 61%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/ecopdmtreeset.cpp [ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/superalignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignment.cpp [ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o [ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignmentpairwise.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignmentpairwiseplen.cpp [ 64%] Linking CXX static library libutils.a cd /build/iqtree-1.6.9+dfsg/build.serial/utils && /usr/bin/cmake -P CMakeFiles/utils.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/utils.dir/link.txt --verbose=1 /usr/bin/ar qc libutils.a CMakeFiles/utils.dir/eigendecomposition.cpp.o CMakeFiles/utils.dir/gzstream.cpp.o CMakeFiles/utils.dir/optimization.cpp.o CMakeFiles/utils.dir/stoprule.cpp.o CMakeFiles/utils.dir/tools.cpp.o CMakeFiles/utils.dir/pllnni.cpp.o CMakeFiles/utils.dir/checkpoint.cpp.o CMakeFiles/utils.dir/MPIHelper.cpp.o /usr/bin/ranlib libutils.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 65%] Linking CXX static library libpda.a [ 65%] Built target utils cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/model /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/model /build/iqtree-1.6.9+dfsg/build.serial/model/CMakeFiles/model.dir/DependInfo.cmake --color= cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/cmake -E cmake_link_script CMakeFiles/pda.dir/link.txt --verbose=1 /usr/bin/ar qc libpda.a CMakeFiles/pda.dir/circularnetwork.cpp.o CMakeFiles/pda.dir/greedy.cpp.o CMakeFiles/pda.dir/gurobiwrapper.cpp.o CMakeFiles/pda.dir/hashsplitset.cpp.o CMakeFiles/pda.dir/pdnetwork.cpp.o CMakeFiles/pda.dir/pruning.cpp.o CMakeFiles/pda.dir/split.cpp.o CMakeFiles/pda.dir/splitgraph.cpp.o CMakeFiles/pda.dir/splitset.cpp.o CMakeFiles/pda.dir/lpwrapper.c.o CMakeFiles/pda.dir/ecopd.cpp.o CMakeFiles/pda.dir/graph.cpp.o CMakeFiles/pda.dir/pdtree.cpp.o CMakeFiles/pda.dir/pdtreeset.cpp.o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o /usr/bin/ranlib libpda.a Scanning dependencies of target model make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 65%] Built target pda [ 65%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o [ 66%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelmarkov.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp [ 67%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelbin.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelbin.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modeldna.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modeldna.cpp [ 67%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o [ 68%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelfactory.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelprotein.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp [ 68%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o [ 69%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelsubst.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelsubst.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelset.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelset.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelbin.h:23, from /build/iqtree-1.6.9+dfsg/model/modelbin.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelset.h:23, from /build/iqtree-1.6.9+dfsg/model/modelset.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.9+dfsg/model/modeldna.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.cpp:20: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modeldna.cpp:240:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelDNA::readRates(string str) throw(const char*) { ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:24: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:26: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:27: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:30: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelprotein.h:23, from /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:634:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelProtein::readRates(istream &in) throw(const char*, string) { ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/partitionmodel.cpp.o -c /build/iqtree-1.6.9+dfsg/model/partitionmodel.cpp [ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/partitionmodelplen.cpp.o -c /build/iqtree-1.6.9+dfsg/model/partitionmodelplen.cpp /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:997:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readRates(istream &in) throw(const char*, string) { ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:1052:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readRates(string str) throw(const char*) { ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:1081:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readStateFreq(istream &in) throw(const char*) { ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:1095:45: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readStateFreq(string str) throw(const char*) { ^~~~~ [ 71%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rategamma.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rategamma.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rategammainvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rategammainvar.cpp [ 72%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateheterogeneity.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterogeneity.cpp [ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o [ 73%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateinvar.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerdiscrete.cpp [ 74%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerhaeseler.cpp [ 74%] Building CXX object model/CMakeFiles/model.dir/ratekategory.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratekategory.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratekategory.cpp [ 75%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratefree.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratefree.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratefreeinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratefreeinvar.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateheterotachy.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterotachy.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.9+dfsg/model/ratefree.cpp:13: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 76%] Linking CXX static library libalignment.a cd /build/iqtree-1.6.9+dfsg/build.serial/alignment && /usr/bin/cmake -P CMakeFiles/alignment.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/alignment.dir/link.txt --verbose=1 /usr/bin/ar qc libalignment.a CMakeFiles/alignment.dir/pattern.cpp.o CMakeFiles/alignment.dir/alignment.cpp.o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o CMakeFiles/alignment.dir/maalignment.cpp.o CMakeFiles/alignment.dir/superalignment.cpp.o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o [ 77%] Building CXX object model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o [ 77%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterotachyinvar.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelcodon.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelcodon.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelmorphology.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp /usr/bin/ranlib libalignment.a [ 78%] Building CXX object model/CMakeFiles/model.dir/modelmixture.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelmixture.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp [ 79%] Building CXX object model/CMakeFiles/model.dir/modelunrest.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelunrest.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelunrest.cpp make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 80%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o [ 80%] Built target alignment cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelliemarkov.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelliemarkov.cpp [ 80%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelpomo.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelpomo.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:11, from /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp:44:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMorphology::readRates(istream &in) throw(const char*, string) { ^~~~~ [ 81%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelpomomixture.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelpomomixture.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelcodon.h:11, from /build/iqtree-1.6.9+dfsg/model/modelcodon.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 81%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelfactorymixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelfactorymixlen.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:9: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:10: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:13: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelunrest.h:11, from /build/iqtree-1.6.9+dfsg/model/modelunrest.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.h:14, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.cpp:9: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.h:14, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.cpp:9: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomo.cpp:1: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomo.cpp:1: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactorymixlen.cpp:12: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelliemarkov.h:11, from /build/iqtree-1.6.9+dfsg/model/modelliemarkov.cpp:25: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 82%] Linking CXX static library libkernelsse.a /usr/bin/cmake -P CMakeFiles/kernelsse.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/kernelsse.dir/link.txt --verbose=1 /usr/bin/ar qc libkernelsse.a CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o /usr/bin/ranlib libkernelsse.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 82%] Built target kernelsse [ 83%] Linking CXX static library libmodel.a cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/cmake -P CMakeFiles/model.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/model && /usr/bin/cmake -E cmake_link_script CMakeFiles/model.dir/link.txt --verbose=1 /usr/bin/ar qc libmodel.a CMakeFiles/model.dir/modelmarkov.cpp.o CMakeFiles/model.dir/modelbin.cpp.o CMakeFiles/model.dir/modeldna.cpp.o CMakeFiles/model.dir/modelfactory.cpp.o CMakeFiles/model.dir/modelprotein.cpp.o CMakeFiles/model.dir/modelset.cpp.o CMakeFiles/model.dir/modelsubst.cpp.o CMakeFiles/model.dir/partitionmodel.cpp.o CMakeFiles/model.dir/partitionmodelplen.cpp.o CMakeFiles/model.dir/rategamma.cpp.o CMakeFiles/model.dir/rategammainvar.cpp.o CMakeFiles/model.dir/rateheterogeneity.cpp.o CMakeFiles/model.dir/rateinvar.cpp.o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o CMakeFiles/model.dir/ratekategory.cpp.o CMakeFiles/model.dir/ratefree.cpp.o CMakeFiles/model.dir/ratefreeinvar.cpp.o CMakeFiles/model.dir/rateheterotachy.cpp.o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o CMakeFiles/model.dir/modelcodon.cpp.o CMakeFiles/model.dir/modelmorphology.cpp.o CMakeFiles/model.dir/modelmixture.cpp.o CMakeFiles/model.dir/modelunrest.cpp.o CMakeFiles/model.dir/modelliemarkov.cpp.o CMakeFiles/model.dir/modelpomo.cpp.o CMakeFiles/model.dir/modelpomomixture.cpp.o CMakeFiles/model.dir/modelfactorymixlen.cpp.o /usr/bin/ranlib libmodel.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 83%] Built target model make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/tree /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/tree /build/iqtree-1.6.9+dfsg/build.serial/tree/CMakeFiles/tree.dir/DependInfo.cmake --color= Scanning dependencies of target tree make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 83%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o [ 83%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o [ 85%] Building CXX object tree/CMakeFiles/tree.dir/constrainttree.cpp.o [ 85%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/constrainttree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/constrainttree.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/candidateset.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/candidateset.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/iqtree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/iqtree.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/matree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/matree.cpp [ 86%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/memslot.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/memslot.cpp [ 86%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/mexttree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mexttree.cpp [ 87%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/mtree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mtree.cpp [ 88%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/mtreeset.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mtreeset.cpp [ 89%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/node.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/node.cpp [ 88%] Building CXX object tree/CMakeFiles/tree.dir/ncbitree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/ncbitree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/ncbitree.cpp In file included from /build/iqtree-1.6.9+dfsg/tree/iqtree.cpp:29: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 89%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylonode.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylonode.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylonodemixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylonodemixlen.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylosupertree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertree.cpp cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertreeplen.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotreemixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreemixlen.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotreepars.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreepars.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotreesse.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreesse.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp:34: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.9+dfsg/tree/phylotreemixlen.cpp:12: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp: In member function 'virtual int PhyloTree::getNumLhCat(SiteLoglType)': /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp:1202:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ [ 94%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/quartet.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/quartet.cpp In file included from /build/iqtree-1.6.9+dfsg/tree/phylotreesse.cpp:35: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 95%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/supernode.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/supernode.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/tinatree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/tinatree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/tinatree.cpp [ 96%] Building CXX object tree/CMakeFiles/tree.dir/parstree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/parstree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/parstree.cpp [ 97%] Linking CXX static library libtree.a cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/cmake -P CMakeFiles/tree.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.serial/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree.dir/link.txt --verbose=1 /usr/bin/ar qc libtree.a CMakeFiles/tree.dir/constrainttree.cpp.o CMakeFiles/tree.dir/candidateset.cpp.o CMakeFiles/tree.dir/iqtree.cpp.o CMakeFiles/tree.dir/matree.cpp.o CMakeFiles/tree.dir/memslot.cpp.o CMakeFiles/tree.dir/mexttree.cpp.o CMakeFiles/tree.dir/mtree.cpp.o CMakeFiles/tree.dir/mtreeset.cpp.o CMakeFiles/tree.dir/ncbitree.cpp.o CMakeFiles/tree.dir/node.cpp.o CMakeFiles/tree.dir/phylonode.cpp.o CMakeFiles/tree.dir/phylonodemixlen.cpp.o CMakeFiles/tree.dir/phylosupertree.cpp.o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o CMakeFiles/tree.dir/phylotree.cpp.o CMakeFiles/tree.dir/phylotreemixlen.cpp.o CMakeFiles/tree.dir/phylotreepars.cpp.o CMakeFiles/tree.dir/phylotreesse.cpp.o CMakeFiles/tree.dir/quartet.cpp.o CMakeFiles/tree.dir/supernode.cpp.o CMakeFiles/tree.dir/tinatree.cpp.o CMakeFiles/tree.dir/parstree.cpp.o /usr/bin/ranlib libtree.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 97%] Built target tree make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/CMakeFiles/iqtree.dir/DependInfo.cmake --color= Scanning dependencies of target iqtree make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 98%] Building CXX object CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o -c /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp [ 99%] Building CXX object CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o [ 99%] Building CXX object CMakeFiles/iqtree.dir/main/phylotesting.cpp.o [100%] Building CXX object CMakeFiles/iqtree.dir/main/main.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/main/main.cpp.o -c /build/iqtree-1.6.9+dfsg/main/main.cpp /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/main/phylotesting.cpp.o -c /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/build/iqtree-1.6.9+dfsg/build.serial -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o -c /build/iqtree-1.6.9+dfsg/obsolete/parsmultistate.cpp /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:862:52: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] << "." << iqtree_VERSION_PATCH << " built " << __DATE__ << endl ^~~~~~~~ /build/iqtree-1.6.9+dfsg/main/main.cpp:235:58: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] out << " " << 8*sizeof(void*) << "-bit" << " built " << __DATE__; ^~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:21: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:30: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:33: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:35: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:36: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:44: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp: In function 'std::__cxx11::string getSeqTypeName(SeqType)': /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:164:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ [100%] Linking CXX executable iqtree /usr/bin/cmake -E cmake_link_script CMakeFiles/iqtree.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -Wl,-z,relro -Wl,-z,now -rdynamic -rdynamic CMakeFiles/iqtree.dir/main/main.cpp.o CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o CMakeFiles/iqtree.dir/main/phylotesting.cpp.o CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o -o iqtree -L/build/iqtree-1.6.9+dfsg/lib32 -Wl,-rpath,/build/iqtree-1.6.9+dfsg/lib32: pll/libpll.a ncl/libncl.a nclextra/libnclextra.a utils/libutils.a pda/libpda.a lbfgsb/liblbfgsb.a whtest/libwhtest.a sprng/libsprng.a vectorclass/libvectorclass.a model/libmodel.a gsl/libgsl.a alignment/libalignment.a tree/libtree.a -lm libkernelsse.a nclextra/libnclextra.a pll/libpll.a model/libmodel.a utils/libutils.a lbfgsb/liblbfgsb.a -lz alignment/libalignment.a ncl/libncl.a gsl/libgsl.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [100%] Built target iqtree make[3]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.serial/CMakeFiles 0 make[2]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' # restore the old naming to avoid name space conflict with serial build if [ -x build.omp/iqtree ] ; then mv build.omp/iqtree build.omp/iqtree-omp ; fi dh_auto_build -Bbuild.mpi cd build.mpi && make -j10 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' /usr/bin/cmake -S/build/iqtree-1.6.9+dfsg -B/build/iqtree-1.6.9+dfsg/build.mpi --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f CMakeFiles/mympi.dir/build.make CMakeFiles/mympi.dir/depend make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles/mympi.dir/DependInfo.cmake --color= make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/depend make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/gsl /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/gsl /build/iqtree-1.6.9+dfsg/build.mpi/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/ncl /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/ncl /build/iqtree-1.6.9+dfsg/build.mpi/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/lbfgsb /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/lbfgsb /build/iqtree-1.6.9+dfsg/build.mpi/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pll /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/pll /build/iqtree-1.6.9+dfsg/build.mpi/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/nclextra /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/nclextra /build/iqtree-1.6.9+dfsg/build.mpi/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/whtest /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/whtest /build/iqtree-1.6.9+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/sprng /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/sprng /build/iqtree-1.6.9+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/vectorclass /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/vectorclass /build/iqtree-1.6.9+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= Scanning dependencies of target gsl make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' Scanning dependencies of target lbfgsb make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build Scanning dependencies of target vectorclass make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 1%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/binomial_tpe.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/binomial_tpe.cpp [ 2%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/lbfgsb && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -c /build/iqtree-1.6.9+dfsg/lbfgsb/lbfgsb_new.cpp [ 3%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/vectorclass && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -c /build/iqtree-1.6.9+dfsg/vectorclass/instrset_detect.cpp Scanning dependencies of target kernelsse Scanning dependencies of target mympi Scanning dependencies of target sprng make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f CMakeFiles/mympi.dir/build.make CMakeFiles/mympi.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build Scanning dependencies of target nclextra make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' Scanning dependencies of target ncl make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 4%] Building CXX object CMakeFiles/mympi.dir/utils/TreeCollection.cpp.o [ 5%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o [ 6%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/mympi.dir/utils/TreeCollection.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/TreeCollection.cpp [ 7%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/mpdablock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/mpdablock.cpp /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylokernelsse.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/lcg64.c.o -c /build/iqtree-1.6.9+dfsg/sprng/lcg64.c [ 8%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsassumptionsblock.cpp Scanning dependencies of target pll make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' Scanning dependencies of target whtest make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build [ 8%] Linking CXX static library libvectorclass.a cd /build/iqtree-1.6.9+dfsg/build.mpi/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake [ 9%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/alignment.c.o -c /build/iqtree-1.6.9+dfsg/pll/alignment.c [ 10%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/eigen.c.o -c /build/iqtree-1.6.9+dfsg/whtest/eigen.c cd /build/iqtree-1.6.9+dfsg/build.mpi/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 /usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o /usr/bin/ranlib libvectorclass.a [ 10%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/multinomial.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/multinomial.cpp make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 10%] Built target vectorclass In file included from /build/iqtree-1.6.9+dfsg/pll/alignment.c:40: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 11%] Building CXX object CMakeFiles/mympi.dir/utils/ObjectStream.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/mympi.dir/utils/ObjectStream.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/ObjectStream.cpp [ 11%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/makeseed.c.o -c /build/iqtree-1.6.9+dfsg/sprng/makeseed.c [ 13%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o [ 14%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o [ 13%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/memory.c.o -c /build/iqtree-1.6.9+dfsg/sprng/memory.c cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/bipartitionList.c.o -c /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c cd /build/iqtree-1.6.9+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/pow_int.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/pow_int.cpp [ 15%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/store.c.o -c /build/iqtree-1.6.9+dfsg/sprng/store.c In file included from /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c:49: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c:29: /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c: In function 'insertHashRF': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/bipartitionList.c:332:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(e->bitVector), PLL_BYTE_ALIGNMENT, (size_t)vectorLength * sizeof(unsigned int)); ^~~~~~~~~~~~~~~~~~ [ 16%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gauss.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/gauss.cpp [ 16%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/primes-lcg64.c.o -c /build/iqtree-1.6.9+dfsg/sprng/primes-lcg64.c [ 16%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/evaluateGenericSpecial.c [ 16%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/eigen_sym.c.o -c /build/iqtree-1.6.9+dfsg/whtest/eigen_sym.c In file included from /build/iqtree-1.6.9+dfsg/pll/evaluateGenericSpecial.c:46: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 16%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o [ 17%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/sprng.dir/checkid.c.o -c /build/iqtree-1.6.9+dfsg/sprng/checkid.c cd /build/iqtree-1.6.9+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gaussinv.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/gaussinv.cpp [ 18%] Linking C static library libsprng.a [ 18%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/random.c.o -c /build/iqtree-1.6.9+dfsg/whtest/random.c cd /build/iqtree-1.6.9+dfsg/build.mpi/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 /usr/bin/ar qc libsprng.a CMakeFiles/sprng.dir/lcg64.c.o CMakeFiles/sprng.dir/makeseed.c.o CMakeFiles/sprng.dir/memory.c.o CMakeFiles/sprng.dir/store.c.o CMakeFiles/sprng.dir/primes-lcg64.c.o CMakeFiles/sprng.dir/checkid.c.o /usr/bin/ranlib libsprng.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 19%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gausspdf.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/gausspdf.cpp [ 19%] Built target sprng [ 19%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/msetsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/msetsblock.cpp [ 20%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/weisslambda.c.o -c /build/iqtree-1.6.9+dfsg/whtest/weisslambda.c [ 21%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/msplitsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/msplitsblock.cpp [ 21%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o [ 21%] Linking CXX static library libgsl.a cd /build/iqtree-1.6.9+dfsg/build.mpi/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/weisslambda_sub.c.o -c /build/iqtree-1.6.9+dfsg/whtest/weisslambda_sub.c cd /build/iqtree-1.6.9+dfsg/build.mpi/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 '/build/iqtree-1.6.9+dfsg/build.mpi' [ 22%] Linking CXX static library liblbfgsb.a cd /build/iqtree-1.6.9+dfsg/build.mpi/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake [ 22%] Built target gsl [ 23%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/modelsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/modelsblock.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/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 '/build/iqtree-1.6.9+dfsg/build.mpi' [ 24%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o [ 24%] Built target lbfgsb cd /build/iqtree-1.6.9+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest.c.o -c /build/iqtree-1.6.9+dfsg/whtest/whtest.c make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/utils /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/utils /build/iqtree-1.6.9+dfsg/build.mpi/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= [ 25%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o [ 25%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsblock.cpp [ 25%] Linking CXX static library libmympi.a /usr/bin/cmake -P CMakeFiles/mympi.dir/cmake_clean_target.cmake Scanning dependencies of target utils make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' /usr/bin/cmake -E cmake_link_script CMakeFiles/mympi.dir/link.txt --verbose=1 [ 25%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/eigendecomposition.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/eigendecomposition.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:45: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:31: /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRCAT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:1175:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 4 * mxtips); ^~~~~~~~~~~~~~~~~~ /usr/bin/ar qc libmympi.a CMakeFiles/mympi.dir/utils/TreeCollection.cpp.o CMakeFiles/mympi.dir/utils/ObjectStream.cpp.o /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRGAMMA': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:1017:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 16 * mxtips); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRCATPROT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:1326:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 20 * mxtips); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRGAMMAPROT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/evaluatePartialGenericSpecial.c:936:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 80 * mxtips); ^~~~~~~~~~~~~~~~~~ /usr/bin/ranlib libmympi.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 25%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o [ 25%] Built target mympi cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/fastDNAparsimony.c.o -c /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c [ 26%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o [ 26%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxscharactersblock.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest_sub.c.o -c /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c: In function 'ReadData': /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c:205:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( ifp, "%c", &c ); ^~~~~~~~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/whtest/whtest_sub.c:221:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf ( ifp, "%c", &c ); ^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:113: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:29: /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c: In function 'compressDNA': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:1692:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &(pr->partitionData[model]->parsVect), PLL_BYTE_ALIGNMENT, (size_t)compressedEntriesPadded * states * totalNodes * sizeof(parsimonyNumber)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c:1768:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); ^~~~~~~~~~~~~~~~~~ [ 27%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/hardware.c.o -c /build/iqtree-1.6.9+dfsg/pll/hardware.c /build/iqtree-1.6.9+dfsg/pll/hardware.c: In function 'pll_probe_cpu': /build/iqtree-1.6.9+dfsg/pll/hardware.c:93:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf (fd, "%d", &id); ^~~~~~~~~~~~~~~~~~~~~~ [ 28%] Building C object pll/CMakeFiles/pll.dir/hash.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/hash.c.o -c /build/iqtree-1.6.9+dfsg/pll/hash.c [ 29%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdatablock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdatablock.cpp [ 29%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/lexer.c.o -c /build/iqtree-1.6.9+dfsg/pll/lexer.c [ 31%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o [ 30%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c cd /build/iqtree-1.6.9+dfsg/build.mpi/whtest && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -c /build/iqtree-1.6.9+dfsg/whtest/whtest_wrapper.cpp [ 31%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdiscretedatum.cpp [ 31%] Building C object pll/CMakeFiles/pll.dir/models.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/models.c.o -c /build/iqtree-1.6.9+dfsg/pll/models.c In file included from /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:44: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:29: /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c: In function 'coreGTRCAT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:2699:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **) &d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 4 * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c: In function 'coreGTRCATPROT': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/makenewzGenericSpecial.c:3074:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 20 * sizeof(double)); ^~~~~~~~~~~~~~~~~~ [ 32%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdiscretematrix.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/models.c:53: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 32%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdistancedatum.cpp [ 33%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdistancesblock.cpp [ 36%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o [ 34%] Building C object pll/CMakeFiles/pll.dir/newick.c.o [ 36%] Linking CXX static library libwhtest.a [ 36%] Linking CXX static library libnclextra.a cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/newick.c.o -c /build/iqtree-1.6.9+dfsg/pll/newick.c cd /build/iqtree-1.6.9+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/gzstream.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/gzstream.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/nclextra && /usr/bin/cmake -E cmake_link_script CMakeFiles/nclextra.dir/link.txt --verbose=1 cd /build/iqtree-1.6.9+dfsg/build.mpi/whtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/whtest.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/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 '/build/iqtree-1.6.9+dfsg/build.mpi' In file included from /build/iqtree-1.6.9+dfsg/pll/newick.c:36: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ /usr/bin/ranlib libnclextra.a [ 36%] Built target whtest [ 37%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/optimization.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/optimization.cpp make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 38%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o [ 38%] Built target nclextra make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsemptyblock.cpp make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pda /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/pda /build/iqtree-1.6.9+dfsg/build.mpi/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= [ 38%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsexception.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsexception.cpp [ 38%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/newviewGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c Scanning dependencies of target pda make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 39%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/circularnetwork.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/circularnetwork.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:49: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:32: /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c: In function 'pllNewviewIterative': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:2763:13: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&x3_start, PLL_BYTE_ALIGNMENT, requiredLength); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:2792:17: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&ex3, PLL_BYTE_ALIGNMENT, requiredExpLength); ^~~~~~~~~~~~~~~~~~ [ 39%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/stoprule.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/stoprule.cpp /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c: In function 'newviewAncestralIterative': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:3730:11: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c: In function 'pllGetCLV': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c:3800:3: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof (double)); ^~~~~~~~~~~~~~~~~~ [ 40%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsreader.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsreader.cpp [ 40%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxssetreader.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxssetreader.cpp [ 41%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/tools.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/tools.cpp [ 42%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/genericParallelization.c.o -c /build/iqtree-1.6.9+dfsg/pll/genericParallelization.c [ 43%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsstring.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsstring.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/genericParallelization.c:43: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 43%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstaxablock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstaxablock.cpp [ 45%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o [ 45%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/optimizeModel.c.o -c /build/iqtree-1.6.9+dfsg/pll/optimizeModel.c cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstoken.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstoken.cpp [ 45%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/greedy.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/greedy.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/optimizeModel.c:47: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 45%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/parsePartition.c.o -c /build/iqtree-1.6.9+dfsg/pll/parsePartition.c In file included from /build/iqtree-1.6.9+dfsg/pll/parsePartition.c:42: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 46%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstreesblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstreesblock.cpp [ 47%] Building C object pll/CMakeFiles/pll.dir/queue.c.o [ 47%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/queue.c.o -c /build/iqtree-1.6.9+dfsg/pll/queue.c cd /build/iqtree-1.6.9+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/pllnni.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/pllnni.cpp [ 47%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/randomTree.c.o -c /build/iqtree-1.6.9+dfsg/pll/randomTree.c In file included from /build/iqtree-1.6.9+dfsg/pll/randomTree.c:37: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 49%] Building C object pll/CMakeFiles/pll.dir/recom.c.o [ 49%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/recom.c.o -c /build/iqtree-1.6.9+dfsg/pll/recom.c cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/restartHashTable.c.o -c /build/iqtree-1.6.9+dfsg/pll/restartHashTable.c [ 50%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/checkpoint.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/checkpoint.cpp [ 50%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/utils.dir/MPIHelper.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/MPIHelper.cpp [ 51%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/gurobiwrapper.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/gurobiwrapper.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/restartHashTable.c:47: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/recom.c:43: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 51%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/searchAlgo.c.o -c /build/iqtree-1.6.9+dfsg/pll/searchAlgo.c [ 51%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/hashsplitset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/hashsplitset.cpp [ 52%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/ssort.c.o -c /build/iqtree-1.6.9+dfsg/pll/ssort.c In file included from /build/iqtree-1.6.9+dfsg/pll/searchAlgo.c:51: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 52%] Building C object pll/CMakeFiles/pll.dir/stack.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/stack.c.o -c /build/iqtree-1.6.9+dfsg/pll/stack.c [ 53%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/topologies.c.o -c /build/iqtree-1.6.9+dfsg/pll/topologies.c In file included from /build/iqtree-1.6.9+dfsg/pll/topologies.c:48: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 54%] Building C object pll/CMakeFiles/pll.dir/trash.c.o [ 55%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/trash.c.o -c /build/iqtree-1.6.9+dfsg/pll/trash.c cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pdnetwork.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdnetwork.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/trash.c:48: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 55%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/treeIO.c.o -c /build/iqtree-1.6.9+dfsg/pll/treeIO.c [ 56%] Building C object pll/CMakeFiles/pll.dir/utils.c.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pll.dir/utils.c.o -c /build/iqtree-1.6.9+dfsg/pll/utils.c [ 57%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pruning.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pruning.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/treeIO.c:49: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ [ 57%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/split.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/split.cpp In file included from /build/iqtree-1.6.9+dfsg/pll/utils.c:70: /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined extern __inline unsigned int bitcount_64_bit(uint64_t i); ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/pll/pllInternal.h:16, from /build/iqtree-1.6.9+dfsg/pll/utils.c:70: /build/iqtree-1.6.9+dfsg/pll/utils.c: In function 'initializePartitionData': /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:588:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->left), PLL_BYTE_ALIGNMENT, (size_t)pl->leftLength * (maxCategories + 1) * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:589:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->right), PLL_BYTE_ALIGNMENT, (size_t)pl->rightLength * (maxCategories + 1) * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:591:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV), PLL_BYTE_ALIGNMENT, (size_t)pl->evLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:597:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector), PLL_BYTE_ALIGNMENT, (size_t)pl->tipVectorLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:609:15: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV_LG4[k]), PLL_BYTE_ALIGNMENT, pl->evLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:613:15: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector_LG4[k]), PLL_BYTE_ALIGNMENT, pl->tipVectorLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:679:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->sumBuffer), PLL_BYTE_ALIGNMENT, width * ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:686:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->perSiteLikelihoods), PLL_BYTE_ALIGNMENT, width * sizeof(double)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:716:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->ancestralBuffer), PLL_BYTE_ALIGNMENT, width * ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:736:7: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->wgt), PLL_BYTE_ALIGNMENT, width * sizeof(int)); ^~~~~~~~~~~~~~~~~~ /build/iqtree-1.6.9+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign', declared with attribute warn_unused_result [-Wunused-result] #define rax_posix_memalign posix_memalign /build/iqtree-1.6.9+dfsg/pll/utils.c:748:11: note: in expansion of macro 'rax_posix_memalign' rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->gapColumn),PLL_BYTE_ALIGNMENT, ((size_t)localTree->mxtips) * ^~~~~~~~~~~~~~~~~~ [ 57%] Linking CXX static library libncl.a cd /build/iqtree-1.6.9+dfsg/build.mpi/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/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 [ 58%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/splitgraph.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/splitgraph.cpp /usr/bin/ranlib libncl.a [ 58%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/splitset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/splitset.cpp make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 58%] Built target ncl make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/alignment /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/alignment /build/iqtree-1.6.9+dfsg/build.mpi/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= [ 59%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o [ 59%] Linking C static library libpll.a cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/lpwrapper.c.o -c /build/iqtree-1.6.9+dfsg/pda/lpwrapper.c cd /build/iqtree-1.6.9+dfsg/build.mpi/pll && /usr/bin/cmake -E cmake_link_script CMakeFiles/pll.dir/link.txt --verbose=1 Scanning dependencies of target alignment make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build /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 make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 59%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/pattern.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/pattern.cpp /usr/bin/ranlib libpll.a [ 60%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/ecopd.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/ecopd.cpp make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 60%] Built target pll [ 60%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/graph.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/graph.cpp [ 61%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pdtree.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdtree.cpp [ 61%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/pdtreeset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdtreeset.cpp [ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o [ 63%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/alignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/alignment.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 -msse3 -o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/ecopdmtreeset.cpp [ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/alignmentpairwise.cpp [ 64%] Linking CXX static library libutils.a cd /build/iqtree-1.6.9+dfsg/build.mpi/utils && /usr/bin/cmake -P CMakeFiles/utils.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/utils.dir/link.txt --verbose=1 /usr/bin/ar qc libutils.a CMakeFiles/utils.dir/eigendecomposition.cpp.o CMakeFiles/utils.dir/gzstream.cpp.o CMakeFiles/utils.dir/optimization.cpp.o CMakeFiles/utils.dir/stoprule.cpp.o CMakeFiles/utils.dir/tools.cpp.o CMakeFiles/utils.dir/pllnni.cpp.o CMakeFiles/utils.dir/checkpoint.cpp.o CMakeFiles/utils.dir/MPIHelper.cpp.o /usr/bin/ranlib libutils.a /build/iqtree-1.6.9+dfsg/alignment/alignment.cpp:2925:92: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void convert_range(const char *str, int &lower, int &upper, int &step_size, char* &endptr) throw (string) { ^~~~~ make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 65%] Built target utils [ 65%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend cd /build/iqtree-1.6.9+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/maalignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/maalignment.cpp make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/model /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/model /build/iqtree-1.6.9+dfsg/build.mpi/model/CMakeFiles/model.dir/DependInfo.cmake --color= [ 65%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/superalignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignment.cpp Scanning dependencies of target model make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 65%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelmarkov.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp [ 66%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelbin.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelbin.cpp [ 67%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignmentpairwise.cpp [ 68%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignmentpairwiseplen.cpp [ 68%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modeldna.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modeldna.cpp [ 69%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelfactory.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelbin.h:23, from /build/iqtree-1.6.9+dfsg/model/modelbin.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 69%] Linking CXX static library libpda.a cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/pda && /usr/bin/cmake -E cmake_link_script CMakeFiles/pda.dir/link.txt --verbose=1 /usr/bin/ar qc libpda.a CMakeFiles/pda.dir/circularnetwork.cpp.o CMakeFiles/pda.dir/greedy.cpp.o CMakeFiles/pda.dir/gurobiwrapper.cpp.o CMakeFiles/pda.dir/hashsplitset.cpp.o CMakeFiles/pda.dir/pdnetwork.cpp.o CMakeFiles/pda.dir/pruning.cpp.o CMakeFiles/pda.dir/split.cpp.o CMakeFiles/pda.dir/splitgraph.cpp.o CMakeFiles/pda.dir/splitset.cpp.o CMakeFiles/pda.dir/lpwrapper.c.o CMakeFiles/pda.dir/ecopd.cpp.o CMakeFiles/pda.dir/graph.cpp.o CMakeFiles/pda.dir/pdtree.cpp.o CMakeFiles/pda.dir/pdtreeset.cpp.o CMakeFiles/pda.dir/ecopdmtreeset.cpp.o [ 69%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelprotein.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:997:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readRates(istream &in) throw(const char*, string) { ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:1052:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readRates(string str) throw(const char*) { ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:1081:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readStateFreq(istream &in) throw(const char*) { ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.cpp:1095:45: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMarkov::readStateFreq(string str) throw(const char*) { ^~~~~ /usr/bin/ranlib libpda.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 69%] Built target pda In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.9+dfsg/model/modeldna.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.cpp:20: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ [ 70%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelset.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelset.cpp /build/iqtree-1.6.9+dfsg/model/modeldna.cpp:240:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelDNA::readRates(string str) throw(const char*) { ^~~~~ [ 71%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelsubst.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelsubst.cpp [ 71%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/partitionmodel.cpp.o -c /build/iqtree-1.6.9+dfsg/model/partitionmodel.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:24: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:26: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:27: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp:30: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelprotein.h:23, from /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:634:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelProtein::readRates(istream &in) throw(const char*, string) { ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelset.h:23, from /build/iqtree-1.6.9+dfsg/model/modelset.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 73%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o [ 73%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rategammainvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rategammainvar.cpp [ 72%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/partitionmodelplen.cpp.o -c /build/iqtree-1.6.9+dfsg/model/partitionmodelplen.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rategamma.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rategamma.cpp [ 74%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateheterogeneity.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterogeneity.cpp [ 74%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateinvar.cpp [ 75%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerdiscrete.cpp [ 75%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerhaeseler.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/ratekategory.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratekategory.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratekategory.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o [ 77%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratefree.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratefree.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/ratefreeinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratefreeinvar.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateheterotachy.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterotachy.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterotachyinvar.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.9+dfsg/model/ratefree.cpp:13: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 79%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelcodon.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelcodon.cpp [ 79%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelmorphology.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp [ 80%] Building CXX object model/CMakeFiles/model.dir/modelmixture.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelmixture.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp [ 81%] Building CXX object model/CMakeFiles/model.dir/modelunrest.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelunrest.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelunrest.cpp [ 81%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelliemarkov.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelliemarkov.cpp [ 82%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelpomo.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelpomo.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelcodon.h:11, from /build/iqtree-1.6.9+dfsg/model/modelcodon.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:11, from /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp:44:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] void ModelMorphology::readRates(istream &in) throw(const char*, string) { ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:9: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:10: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.cpp:13: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ [ 82%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelpomomixture.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelpomomixture.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelunrest.h:11, from /build/iqtree-1.6.9+dfsg/model/modelunrest.cpp:8: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelliemarkov.h:11, from /build/iqtree-1.6.9+dfsg/model/modelliemarkov.cpp:25: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 83%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/model.dir/modelfactorymixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelfactorymixlen.cpp [ 83%] Linking CXX static library libalignment.a cd /build/iqtree-1.6.9+dfsg/build.mpi/alignment && /usr/bin/cmake -P CMakeFiles/alignment.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/alignment.dir/link.txt --verbose=1 /usr/bin/ar qc libalignment.a CMakeFiles/alignment.dir/pattern.cpp.o CMakeFiles/alignment.dir/alignment.cpp.o CMakeFiles/alignment.dir/alignmentpairwise.cpp.o CMakeFiles/alignment.dir/maalignment.cpp.o CMakeFiles/alignment.dir/superalignment.cpp.o CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o /usr/bin/ranlib libalignment.a In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.h:14, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.cpp:9: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.h:14, from /build/iqtree-1.6.9+dfsg/model/modelpomomixture.cpp:9: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 83%] Built target alignment In file included from /build/iqtree-1.6.9+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomo.cpp:1: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelpomo.h:4, from /build/iqtree-1.6.9+dfsg/model/modelpomo.cpp:1: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelfactorymixlen.cpp:12: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 83%] Linking CXX static library libkernelsse.a /usr/bin/cmake -P CMakeFiles/kernelsse.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/kernelsse.dir/link.txt --verbose=1 /usr/bin/ar qc libkernelsse.a CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o /usr/bin/ranlib libkernelsse.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 83%] Built target kernelsse [ 83%] Linking CXX static library libmodel.a cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/cmake -P CMakeFiles/model.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/model && /usr/bin/cmake -E cmake_link_script CMakeFiles/model.dir/link.txt --verbose=1 /usr/bin/ar qc libmodel.a CMakeFiles/model.dir/modelmarkov.cpp.o CMakeFiles/model.dir/modelbin.cpp.o CMakeFiles/model.dir/modeldna.cpp.o CMakeFiles/model.dir/modelfactory.cpp.o CMakeFiles/model.dir/modelprotein.cpp.o CMakeFiles/model.dir/modelset.cpp.o CMakeFiles/model.dir/modelsubst.cpp.o CMakeFiles/model.dir/partitionmodel.cpp.o CMakeFiles/model.dir/partitionmodelplen.cpp.o CMakeFiles/model.dir/rategamma.cpp.o CMakeFiles/model.dir/rategammainvar.cpp.o CMakeFiles/model.dir/rateheterogeneity.cpp.o CMakeFiles/model.dir/rateinvar.cpp.o CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o CMakeFiles/model.dir/ratekategory.cpp.o CMakeFiles/model.dir/ratefree.cpp.o CMakeFiles/model.dir/ratefreeinvar.cpp.o CMakeFiles/model.dir/rateheterotachy.cpp.o CMakeFiles/model.dir/rateheterotachyinvar.cpp.o CMakeFiles/model.dir/modelcodon.cpp.o CMakeFiles/model.dir/modelmorphology.cpp.o CMakeFiles/model.dir/modelmixture.cpp.o CMakeFiles/model.dir/modelunrest.cpp.o CMakeFiles/model.dir/modelliemarkov.cpp.o CMakeFiles/model.dir/modelpomo.cpp.o CMakeFiles/model.dir/modelpomomixture.cpp.o CMakeFiles/model.dir/modelfactorymixlen.cpp.o /usr/bin/ranlib libmodel.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 83%] Built target model make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/tree /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/tree /build/iqtree-1.6.9+dfsg/build.mpi/tree/CMakeFiles/tree.dir/DependInfo.cmake --color= Scanning dependencies of target tree make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 89%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o [ 88%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o [ 88%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o [ 84%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o [ 89%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o [ 89%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.cpp.o [ 89%] Building CXX object tree/CMakeFiles/tree.dir/constrainttree.cpp.o [ 88%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o [ 89%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o [ 89%] Building CXX object tree/CMakeFiles/tree.dir/ncbitree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/constrainttree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/constrainttree.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/candidateset.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/candidateset.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/iqtree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/iqtree.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/matree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/matree.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/memslot.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/memslot.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/mexttree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mexttree.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/mtree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mtree.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/mtreeset.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mtreeset.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/ncbitree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/ncbitree.cpp cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/node.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/node.cpp In file included from /build/iqtree-1.6.9+dfsg/tree/iqtree.cpp:29: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylonode.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylonode.cpp [ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylonodemixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylonodemixlen.cpp [ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylosupertree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertree.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertreeplen.cpp [ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotreemixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreemixlen.cpp [ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotreepars.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreepars.cpp [ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/phylotreesse.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreesse.cpp In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.9+dfsg/tree/phylotreemixlen.cpp:12: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp:34: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp: In member function 'virtual int PhyloTree::getNumLhCat(SiteLoglType)': /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp:1202:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ In file included from /build/iqtree-1.6.9+dfsg/tree/phylotreesse.cpp:35: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ [ 94%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/quartet.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/quartet.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/supernode.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/supernode.cpp [ 96%] Building CXX object tree/CMakeFiles/tree.dir/tinatree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/tinatree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/tinatree.cpp [ 96%] Building CXX object tree/CMakeFiles/tree.dir/parstree.cpp.o cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/tree.dir/parstree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/parstree.cpp [ 97%] Linking CXX static library libtree.a cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/cmake -P CMakeFiles/tree.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.9+dfsg/build.mpi/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree.dir/link.txt --verbose=1 /usr/bin/ar qc libtree.a CMakeFiles/tree.dir/constrainttree.cpp.o CMakeFiles/tree.dir/candidateset.cpp.o CMakeFiles/tree.dir/iqtree.cpp.o CMakeFiles/tree.dir/matree.cpp.o CMakeFiles/tree.dir/memslot.cpp.o CMakeFiles/tree.dir/mexttree.cpp.o CMakeFiles/tree.dir/mtree.cpp.o CMakeFiles/tree.dir/mtreeset.cpp.o CMakeFiles/tree.dir/ncbitree.cpp.o CMakeFiles/tree.dir/node.cpp.o CMakeFiles/tree.dir/phylonode.cpp.o CMakeFiles/tree.dir/phylonodemixlen.cpp.o CMakeFiles/tree.dir/phylosupertree.cpp.o CMakeFiles/tree.dir/phylosupertreeplen.cpp.o CMakeFiles/tree.dir/phylotree.cpp.o CMakeFiles/tree.dir/phylotreemixlen.cpp.o CMakeFiles/tree.dir/phylotreepars.cpp.o CMakeFiles/tree.dir/phylotreesse.cpp.o CMakeFiles/tree.dir/quartet.cpp.o CMakeFiles/tree.dir/supernode.cpp.o CMakeFiles/tree.dir/tinatree.cpp.o CMakeFiles/tree.dir/parstree.cpp.o /usr/bin/ranlib libtree.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 97%] Built target tree make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles/iqtree.dir/DependInfo.cmake --color= Scanning dependencies of target iqtree make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 98%] Building CXX object CMakeFiles/iqtree.dir/main/main.cpp.o [ 98%] Building CXX object CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/main/main.cpp.o -c /build/iqtree-1.6.9+dfsg/main/main.cpp /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o -c /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp [100%] Building CXX object CMakeFiles/iqtree.dir/main/phylotesting.cpp.o [100%] Building CXX object CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/main/phylotesting.cpp.o -c /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.9+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.9+dfsg/build.mpi -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o -c /build/iqtree-1.6.9+dfsg/obsolete/parsmultistate.cpp /build/iqtree-1.6.9+dfsg/main/main.cpp:235:58: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] out << " " << 8*sizeof(void*) << "-bit" << " built " << __DATE__; ^~~~~~~~ /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:862:52: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] << "." << iqtree_VERSION_PATCH << " built " << __DATE__ << endl ^~~~~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:35: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:36: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phyloanalysis.cpp:44: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:20: /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(istream &in) throw(const char*); ^~~~~ /build/iqtree-1.6.9+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readStateFreq(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:21: /build/iqtree-1.6.9+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(string str) throw(const char*); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:30: /build/iqtree-1.6.9+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ In file included from /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:33: /build/iqtree-1.6.9+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] virtual void readRates(istream &in) throw(const char*, string); ^~~~~ /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp: In function 'std::__cxx11::string getSeqTypeName(SeqType)': /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp:164:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ [100%] Linking CXX executable iqtree-mpi /usr/bin/cmake -E cmake_link_script CMakeFiles/iqtree.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -pthread -Wl,-z,relro -Wl,-z,now -rdynamic -rdynamic CMakeFiles/iqtree.dir/main/main.cpp.o CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o CMakeFiles/iqtree.dir/main/phylotesting.cpp.o CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o -o iqtree-mpi -L/build/iqtree-1.6.9+dfsg/lib32 -Wl,-rpath,/build/iqtree-1.6.9+dfsg/lib32:/usr/lib/i386-linux-gnu/openmpi/lib: pll/libpll.a ncl/libncl.a nclextra/libnclextra.a utils/libutils.a pda/libpda.a lbfgsb/liblbfgsb.a whtest/libwhtest.a sprng/libsprng.a vectorclass/libvectorclass.a model/libmodel.a gsl/libgsl.a alignment/libalignment.a tree/libtree.a -lm libkernelsse.a libmympi.a /usr/lib/i386-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/i386-linux-gnu/openmpi/lib/libmpi.so nclextra/libnclextra.a pll/libpll.a model/libmodel.a utils/libutils.a lbfgsb/liblbfgsb.a -lz alignment/libalignment.a ncl/libncl.a gsl/libgsl.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [100%] Built target iqtree make[3]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles 0 make[2]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' # restore the old naming to avoid name space conflict with serial build if [ -x build.omp/iqtree ] ; then mv build.omp/iqtree build.omp/iqtree-omp ; fi dh override_dh_auto_build make[1]: Leaving directory '/build/iqtree-1.6.9+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/iqtree-1.6.9+dfsg' # use only the first example for build time test to save time on autobuilders sed '/ myprefix/,$d' debian/Documents_source/example.sh > example.short echo 'time /build/iqtree-1.6.9+dfsg/build.omp/iqtree-omp -s example.phy -omp 2 -redo' >> example.short time sh example.short Executing tests using /build/iqtree-1.6.9+dfsg/build.omp/iqtree-omp ... + /build/iqtree-1.6.9+dfsg/build.omp/iqtree-omp -s example.phy IQ-TREE multicore version 1.6.9 for Linux 32-bit built Jan 2 2019 Developed by Bui Quang Minh, Nguyen Lam Tung, Olga Chernomor, Heiko Schmidt, Dominik Schrempf, Michael Woodhams. Host: i-capture-the-hostname (SSE4.2, 35 GB RAM) Command: /build/iqtree-1.6.9+dfsg/build.omp/iqtree-omp -s example.phy Seed: 564384 (Using SPRNG - Scalable Parallel Random Number Generator) Time: Mon Jun 15 15:38:35 2020 Kernel: SSE2 - 1 threads (10 CPU cores detected) HINT: Use -nt option to specify number of threads because your CPU has 10 cores! HINT: -nt AUTO will automatically determine the best number of threads to use. Reading alignment file example.phy ... Phylip format detected Alignment most likely contains DNA/RNA sequences Alignment has 17 sequences with 1998 columns, 1152 distinct patterns 1009 parsimony-informative, 303 singleton sites, 685 constant sites Gap/Ambiguity Composition p-value 1 LngfishAu 0.15% passed 6.20% 2 LngfishSA 0.00% failed 0.62% 3 LngfishAf 0.05% failed 1.60% 4 Frog 0.05% passed 58.01% 5 Turtle 0.15% passed 44.25% 6 Sphenodon 0.10% passed 59.78% 7 Lizard 0.90% passed 38.67% 8 Crocodile 0.35% failed 2.51% 9 Bird 0.00% failed 0.00% 10 Human 0.00% failed 0.85% 11 Seal 0.00% passed 68.93% 12 Cow 0.00% passed 59.11% 13 Whale 0.00% passed 97.83% 14 Mouse 0.05% failed 1.43% 15 Rat 0.00% passed 39.69% 16 Platypus 0.00% failed 3.46% 17 Opossum 0.00% failed 0.01% **** TOTAL 0.11% 8 sequences failed composition chi2 test (p-value<5%; df=3) Create initial parsimony tree by phylogenetic likelihood library (PLL)... 0.022 seconds NOTE: ModelFinder requires 6 MB RAM! ModelFinder will test 286 DNA models (sample size: 1998) ... No. Model -LnL df AIC AICc BIC 1 JC 23650.090 31 47362.181 47363.190 47535.778 2 JC+I 22582.953 32 45229.905 45230.980 45409.102 3 JC+G4 22261.254 32 44586.508 44587.583 44765.705 4 JC+I+G4 22247.804 33 44561.608 44562.750 44746.405 5 JC+R2 22284.451 33 44634.902 44636.044 44819.698 6 JC+R3 22237.152 35 44544.304 44545.588 44740.300 7 JC+R4 22237.058 37 44548.115 44549.550 44755.312 14 F81+F 23509.732 34 47087.463 47088.676 47277.860 15 F81+F+I 22401.487 35 44872.975 44874.259 45068.971 16 F81+F+G4 22037.142 35 44144.285 44145.569 44340.281 17 F81+F+I+G4 22024.010 36 44120.020 44121.379 44321.617 18 F81+F+R2 22074.203 36 44220.406 44221.764 44422.002 19 F81+F+R3 22015.103 38 44106.205 44107.718 44319.002 20 F81+F+R4 22015.031 40 44110.061 44111.737 44334.057 27 K2P 23306.003 32 46676.005 46677.080 46855.202 28 K2P+I 22218.512 33 44503.024 44504.166 44687.820 29 K2P+G4 21852.729 33 43771.457 43772.600 43956.254 30 K2P+I+G4 21837.998 34 43743.997 43745.209 43934.394 31 K2P+R2 21897.033 34 43862.067 43863.279 44052.464 32 K2P+R3 21827.622 36 43727.243 43728.602 43928.840 33 K2P+R4 21827.582 38 43731.163 43732.676 43943.959 40 HKY+F 23122.817 35 46315.634 46316.919 46511.631 41 HKY+F+I 21962.106 36 43996.212 43997.570 44197.808 42 HKY+F+G4 21498.501 36 43069.001 43070.360 43270.598 43 HKY+F+I+G4 21483.768 37 43041.536 43042.970 43248.732 44 HKY+F+R2 21586.303 37 43246.606 43248.040 43453.802 45 HKY+F+R3 21471.393 39 43020.787 43022.380 43239.183 46 HKY+F+R4 21471.361 41 43024.722 43026.482 43254.318 53 TNe 23212.914 33 46491.829 46492.971 46676.626 54 TNe+I 22133.437 34 44334.873 44336.086 44525.270 55 TNe+G4 21727.286 34 43522.572 43523.784 43712.969 56 TNe+I+G4 21717.356 35 43504.712 43505.996 43700.708 57 TNe+R2 21782.582 35 43635.164 43636.448 43831.160 58 TNe+R3 21712.362 37 43498.724 43500.158 43705.920 59 TNe+R4 21712.296 39 43502.591 43504.185 43720.987 66 TN+F 22996.000 36 46064.000 46065.359 46265.597 67 TN+F+I 21865.731 37 43805.463 43806.897 44012.659 68 TN+F+G4 21381.494 37 42836.988 42838.423 43044.184 69 TN+F+I+G4 21372.253 38 42820.506 42822.019 43033.302 70 TN+F+R2 21468.251 38 43012.503 43014.016 43225.299 71 TN+F+R3 21369.063 40 42818.126 42819.802 43042.122 72 TN+F+R4 21369.052 42 42822.104 42823.952 43057.300 79 K3P 23305.550 33 46677.101 46678.243 46861.897 80 K3P+I 22218.096 34 44504.192 44505.405 44694.589 81 K3P+G4 21852.521 34 43773.041 43774.254 43963.438 82 K3P+I+G4 21837.966 35 43745.933 43747.217 43941.929 83 K3P+R2 21896.658 35 43863.317 43864.601 44059.314 84 K3P+R3 21827.531 37 43729.063 43730.497 43936.259 85 K3P+R4 21827.429 39 43732.858 43734.451 43951.254 92 K3Pu+F 23122.378 36 46316.756 46318.114 46518.352 93 K3Pu+F+I 21961.415 37 43996.830 43998.265 44204.026 94 K3Pu+F+G4 21498.044 37 43070.087 43071.522 43277.284 95 K3Pu+F+I+G4 21483.337 38 43042.675 43044.188 43255.471 96 K3Pu+F+R2 21585.224 38 43246.449 43247.962 43459.245 97 K3Pu+F+R3 21471.105 40 43022.210 43023.886 43246.206 98 K3Pu+F+R4 21471.067 42 43026.134 43027.982 43261.330 105 TPM2+F 22822.041 36 45716.082 45717.440 45917.678 106 TPM2+F+I 21713.154 37 43500.308 43501.743 43707.504 107 TPM2+F+G4 21311.673 37 42697.345 42698.780 42904.542 108 TPM2+F+I+G4 21298.849 38 42673.697 42675.210 42886.494 109 TPM2+F+R2 21369.634 38 42815.269 42816.782 43028.065 110 TPM2+F+R3 21290.291 40 42660.582 42662.258 42884.578 111 TPM2+F+R4 21290.280 42 42664.560 42666.407 42899.756 118 TPM2u+F 22822.039 36 45716.078 45717.436 45917.674 119 TPM2u+F+I 21713.155 37 43500.310 43501.745 43707.507 120 TPM2u+F+G4 21311.689 37 42697.378 42698.813 42904.575 121 TPM2u+F+I+G4 21298.832 38 42673.664 42675.177 42886.461 122 TPM2u+F+R2 21369.633 38 42815.267 42816.780 43028.063 123 TPM2u+F+R3 21290.291 40 42660.582 42662.258 42884.578 124 TPM2u+F+R4 21290.290 42 42664.580 42666.427 42899.776 131 TPM3+F 23121.230 36 46314.459 46315.818 46516.056 132 TPM3+F+I 21961.610 37 43997.220 43998.655 44204.417 133 TPM3+F+G4 21497.751 37 43069.501 43070.936 43276.698 134 TPM3+F+I+G4 21482.992 38 43041.983 43043.496 43254.779 135 TPM3+F+R2 21586.294 38 43248.589 43250.102 43461.385 136 TPM3+F+R3 21470.760 40 43021.519 43023.195 43245.515 137 TPM3+F+R4 21470.701 42 43025.402 43027.250 43260.598 144 TPM3u+F 23121.227 36 46314.454 46315.813 46516.051 145 TPM3u+F+I 21961.610 37 43997.219 43998.654 44204.416 146 TPM3u+F+G4 21497.747 37 43069.493 43070.928 43276.689 147 TPM3u+F+I+G4 21482.990 38 43041.981 43043.494 43254.777 148 TPM3u+F+R2 21586.295 38 43248.590 43250.103 43461.386 149 TPM3u+F+R3 21470.772 40 43021.544 43023.220 43245.540 150 TPM3u+F+R4 21470.684 42 43025.368 43027.216 43260.564 157 TIMe 23212.472 34 46492.944 46494.157 46683.341 158 TIMe+I 22133.046 35 44336.091 44337.376 44532.088 159 TIMe+G4 21727.188 35 43524.377 43525.661 43720.373 160 TIMe+I+G4 21717.269 36 43506.539 43507.897 43708.135 161 TIMe+R2 21782.296 36 43636.592 43637.951 43838.189 162 TIMe+R3 21712.262 38 43500.523 43502.036 43713.319 163 TIMe+R4 21712.217 40 43504.433 43506.109 43728.429 170 TIM+F 22995.561 37 46065.122 46066.556 46272.318 171 TIM+F+I 21865.037 38 43806.074 43807.587 44018.870 172 TIM+F+G4 21381.148 38 42838.295 42839.808 43051.091 173 TIM+F+I+G4 21371.853 39 42821.707 42823.300 43040.103 174 TIM+F+R2 21467.368 39 43012.736 43014.329 43231.132 175 TIM+F+R3 21368.698 41 42819.397 42821.157 43048.993 176 TIM+F+R4 21368.666 43 42823.333 42825.270 43064.129 183 TIM2e 22744.601 34 45557.202 45558.415 45747.599 184 TIM2e+I 21720.391 35 43510.781 43512.066 43706.778 185 TIM2e+G4 21330.698 35 42731.397 42732.681 42927.393 186 TIM2e+I+G4 21317.957 36 42707.915 42709.273 42909.511 187 TIM2e+R2 21385.483 36 42842.966 42844.324 43044.562 188 TIM2e+R3 21311.767 38 42699.535 42701.048 42912.331 189 TIM2e+R4 21311.621 40 42703.241 42704.917 42927.237 196 TIM2+F 22711.068 37 45496.137 45497.571 45703.333 197 TIM2+F+I 21627.479 38 43330.958 43332.471 43543.754 198 TIM2+F+G4 21172.248 38 42420.496 42422.009 42633.292 199 TIM2+F+I+G4 21164.169 39 42406.339 42407.932 42624.735 200 TIM2+F+R2 21250.859 39 42579.719 42581.312 42798.115 201 TIM2+F+R3 21161.473 41 42404.945 42406.706 42634.541 202 TIM2+F+R4 21161.446 43 42408.892 42410.828 42649.688 209 TIM3e 23211.506 34 46491.012 46492.224 46681.409 210 TIM3e+I 22132.948 35 44335.895 44337.180 44531.892 211 TIM3e+G4 21726.608 35 43523.217 43524.501 43719.213 212 TIM3e+I+G4 21716.694 36 43505.389 43506.747 43706.985 213 TIM3e+R2 21782.534 36 43637.067 43638.426 43838.664 214 TIM3e+R3 21711.825 38 43499.651 43501.164 43712.447 215 TIM3e+R4 21711.743 40 43503.487 43505.163 43727.483 222 TIM3+F 22994.252 37 46062.504 46063.938 46269.700 223 TIM3+F+I 21865.205 38 43806.411 43807.924 44019.207 224 TIM3+F+G4 21380.441 38 42836.881 42838.394 43049.678 225 TIM3+F+I+G4 21371.201 39 42820.403 42821.996 43038.799 226 TIM3+F+R2 21468.161 39 43014.322 43015.915 43232.718 227 TIM3+F+R3 21368.551 41 42819.102 42820.863 43048.698 228 TIM3+F+R4 21368.426 43 42822.852 42824.788 43063.648 235 TVMe 22817.706 35 45705.413 45706.697 45901.409 236 TVMe+I 21797.857 36 43667.714 43669.072 43869.310 237 TVMe+G4 21428.288 36 42928.575 42929.934 43130.172 238 TVMe+I+G4 21413.111 37 42900.222 42901.657 43107.418 239 TVMe+R2 21479.686 37 43033.372 43034.807 43240.569 240 TVMe+R3 21406.122 39 42890.245 42891.838 43108.641 241 TVMe+R4 21406.017 41 42894.033 42895.794 43123.629 248 TVM+F 22815.643 38 45707.286 45708.799 45920.082 249 TVM+F+I 21707.713 39 43493.427 43495.020 43711.823 250 TVM+F+G4 21307.950 39 42693.901 42695.494 42912.297 251 TVM+F+I+G4 21295.084 40 42670.168 42671.844 42894.164 252 TVM+F+R2 21366.214 40 42812.428 42814.104 43036.424 253 TVM+F+R3 21286.823 42 42657.646 42659.494 42892.842 254 TVM+F+R4 21286.749 44 42661.498 42663.525 42907.893 261 SYM 22738.988 36 45549.977 45551.335 45751.573 262 SYM+I 21715.761 37 43505.521 43506.956 43712.718 263 SYM+G4 21327.259 37 42728.517 42729.952 42935.714 264 SYM+I+G4 21314.475 38 42704.950 42706.463 42917.746 265 SYM+R2 21382.507 38 42841.014 42842.527 43053.810 266 SYM+R3 21308.460 40 42696.920 42698.596 42920.916 267 SYM+R4 21308.452 42 42700.905 42702.752 42936.100 274 GTR+F 22704.657 39 45487.313 45488.907 45705.709 275 GTR+F+I 21622.109 40 43324.218 43325.894 43548.214 276 GTR+F+G4 21168.172 40 42416.343 42418.019 42640.340 277 GTR+F+I+G4 21160.195 41 42402.391 42404.151 42631.986 278 GTR+F+R2 21247.036 41 42576.071 42577.832 42805.667 279 GTR+F+R3 21157.735 43 42401.470 42403.407 42642.266 280 GTR+F+R4 21157.666 45 42405.331 42407.452 42657.327 Akaike Information Criterion: GTR+F+R3 Corrected Akaike Information Criterion: GTR+F+R3 Bayesian Information Criterion: TIM2+F+I+G4 Best-fit model: TIM2+F+I+G4 chosen according to BIC All model information printed to example.phy.model.gz CPU time for ModelFinder: 52.732 seconds (0h:0m:52s) Wall-clock time for ModelFinder: 59.356 seconds (0h:0m:59s) NOTE: 2 MB RAM (0 GB) is required! Estimate model parameters (epsilon = 0.100) Thoroughly optimizing +I+G parameters from 10 start values... Init pinv, alpha: 0.000, 1.000 / Estimate: 0.000, 0.484 / LogL: -21172.268 Init pinv, alpha: 0.038, 1.000 / Estimate: 0.047, 0.538 / LogL: -21168.912 Init pinv, alpha: 0.076, 1.000 / Estimate: 0.100, 0.618 / LogL: -21165.840 Init pinv, alpha: 0.114, 1.000 / Estimate: 0.123, 0.663 / LogL: -21164.910 Init pinv, alpha: 0.153, 1.000 / Estimate: 0.156, 0.736 / LogL: -21164.117 Init pinv, alpha: 0.191, 1.000 / Estimate: 0.185, 0.813 / LogL: -21164.278 Init pinv, alpha: 0.229, 1.000 / Estimate: 0.190, 0.826 / LogL: -21164.407 Init pinv, alpha: 0.267, 1.000 / Estimate: 0.190, 0.828 / LogL: -21164.424 Init pinv, alpha: 0.305, 1.000 / Estimate: 0.190, 0.827 / LogL: -21164.417 Init pinv, alpha: 0.343, 1.000 / Estimate: 0.189, 0.823 / LogL: -21164.376 Optimal pinv,alpha: 0.156, 0.736 / LogL: -21164.117 Parameters optimization took 7.503 sec Computing ML distances based on estimated model parameters... 0.010 sec Computing BIONJ tree... 0.001 seconds Log-likelihood of BIONJ tree: -21157.760 -------------------------------------------------------------------- | INITIALIZING CANDIDATE TREE SET | -------------------------------------------------------------------- Generating 98 parsimony trees... 0.731 second Computing log-likelihood of 98 initial trees ... 3.550 seconds Current best score: -21157.760 Do NNI search on 20 best initial trees Estimate model parameters (epsilon = 0.100) BETTER TREE FOUND at iteration 1: -21157.727 Estimate model parameters (epsilon = 0.100) BETTER TREE FOUND at iteration 2: -21152.525 Iteration 10 / LogL: -21152.530 / Time: 0h:0m:14s Iteration 20 / LogL: -21157.783 / Time: 0h:0m:17s Finish initializing candidate tree set (2) Current best tree score: -21152.525 / CPU time: 9.731 Number of iterations: 20 -------------------------------------------------------------------- | OPTIMIZING CANDIDATE TREE SET | -------------------------------------------------------------------- Iteration 30 / LogL: -21152.559 / Time: 0h:0m:20s (0h:0m:49s left) Iteration 40 / LogL: -21154.389 / Time: 0h:0m:22s (0h:0m:35s left) Iteration 50 / LogL: -21158.171 / Time: 0h:0m:25s (0h:0m:26s left) Iteration 60 / LogL: -21152.976 / Time: 0h:0m:27s (0h:0m:19s left) Iteration 70 / LogL: -21152.647 / Time: 0h:0m:31s (0h:0m:14s left) Iteration 80 / LogL: -21152.561 / Time: 0h:0m:34s (0h:0m:9s left) Iteration 90 / LogL: -21152.663 / Time: 0h:0m:37s (0h:0m:4s left) Iteration 100 / LogL: -21152.622 / Time: 0h:0m:39s (0h:0m:0s left) TREE SEARCH COMPLETED AFTER 103 ITERATIONS / Time: 0h:0m:39s -------------------------------------------------------------------- | FINALIZING TREE SEARCH | -------------------------------------------------------------------- Performs final model parameters optimization Estimate model parameters (epsilon = 0.010) 1. Initial log-likelihood: -21152.525 Optimal log-likelihood: -21152.523 Rate parameters: A-C: 5.58054 A-G: 7.64552 A-T: 5.58054 C-G: 1.00000 C-T: 22.62483 G-T: 1.00000 Base frequencies: A: 0.355 C: 0.228 G: 0.192 T: 0.225 Proportion of invariable sites: 0.157 Gamma shape alpha: 0.736 Parameters optimization took 1 rounds (0.111 sec) BEST SCORE FOUND : -21152.523 Total tree length: 4.218 Total number of iterations: 103 CPU time used for tree search: 28.968 sec (0h:0m:28s) Wall-clock time used for tree search: 32.267 sec (0h:0m:32s) Total CPU time used: 36.293 sec (0h:0m:36s) Total wall-clock time used: 40.159 sec (0h:0m:40s) Analysis results written to: IQ-TREE report: example.phy.iqtree Maximum-likelihood tree: example.phy.treefile Likelihood distances: example.phy.mldist Screen log file: example.phy.log Date and Time: Mon Jun 15 15:40:15 2020 real 1m39.790s user 1m29.069s sys 0m0.991s + /build/iqtree-1.6.9+dfsg/build.omp/iqtree-omp -s example.phy -omp 2 -redo IQ-TREE multicore version 1.6.9 for Linux 32-bit built Jan 2 2019 Developed by Bui Quang Minh, Nguyen Lam Tung, Olga Chernomor, Heiko Schmidt, Dominik Schrempf, Michael Woodhams. Host: i-capture-the-hostname (SSE4.2, 35 GB RAM) Command: /build/iqtree-1.6.9+dfsg/build.omp/iqtree-omp -s example.phy -omp 2 -redo Seed: 292221 (Using SPRNG - Scalable Parallel Random Number Generator) Time: Mon Jun 15 15:40:15 2020 Kernel: SSE2 - 2 threads (10 CPU cores detected) Reading alignment file example.phy ... Phylip format detected Alignment most likely contains DNA/RNA sequences Alignment has 17 sequences with 1998 columns, 1152 distinct patterns 1009 parsimony-informative, 303 singleton sites, 685 constant sites Gap/Ambiguity Composition p-value 1 LngfishAu 0.15% passed 6.20% 2 LngfishSA 0.00% failed 0.62% 3 LngfishAf 0.05% failed 1.60% 4 Frog 0.05% passed 58.01% 5 Turtle 0.15% passed 44.25% 6 Sphenodon 0.10% passed 59.78% 7 Lizard 0.90% passed 38.67% 8 Crocodile 0.35% failed 2.51% 9 Bird 0.00% failed 0.00% 10 Human 0.00% failed 0.85% 11 Seal 0.00% passed 68.93% 12 Cow 0.00% passed 59.11% 13 Whale 0.00% passed 97.83% 14 Mouse 0.05% failed 1.43% 15 Rat 0.00% passed 39.69% 16 Platypus 0.00% failed 3.46% 17 Opossum 0.00% failed 0.01% **** TOTAL 0.11% 8 sequences failed composition chi2 test (p-value<5%; df=3) NOTE: Restoring information from model checkpoint file example.phy.model.gz CHECKPOINT: Initial tree restored NOTE: ModelFinder requires 6 MB RAM! ModelFinder will test 286 DNA models (sample size: 1998) ... No. Model -LnL df AIC AICc BIC 1 JC 23650.090 31 47362.181 47363.190 47535.778 2 JC+I 22582.953 32 45229.905 45230.980 45409.102 3 JC+G4 22261.254 32 44586.509 44587.583 44765.705 4 JC+I+G4 22247.804 33 44561.608 44562.750 44746.405 5 JC+R2 22284.451 33 44634.902 44636.044 44819.698 6 JC+R3 22237.152 35 44544.304 44545.588 44740.300 7 JC+R4 22237.058 37 44548.115 44549.550 44755.312 14 F81+F 23509.732 34 47087.463 47088.676 47277.860 15 F81+F+I 22401.487 35 44872.975 44874.259 45068.971 16 F81+F+G4 22037.142 35 44144.285 44145.569 44340.281 17 F81+F+I+G4 22024.010 36 44120.020 44121.379 44321.617 18 F81+F+R2 22074.203 36 44220.406 44221.764 44422.002 19 F81+F+R3 22015.103 38 44106.205 44107.718 44319.002 20 F81+F+R4 22015.031 40 44110.061 44111.737 44334.057 27 K2P 23306.003 32 46676.005 46677.080 46855.202 28 K2P+I 22218.512 33 44503.024 44504.166 44687.820 29 K2P+G4 21852.729 33 43771.457 43772.600 43956.254 30 K2P+I+G4 21837.998 34 43743.997 43745.209 43934.394 31 K2P+R2 21897.033 34 43862.067 43863.279 44052.464 32 K2P+R3 21827.622 36 43727.243 43728.602 43928.840 33 K2P+R4 21827.582 38 43731.163 43732.676 43943.959 40 HKY+F 23122.817 35 46315.634 46316.919 46511.631 41 HKY+F+I 21962.106 36 43996.212 43997.570 44197.808 42 HKY+F+G4 21498.501 36 43069.001 43070.360 43270.598 43 HKY+F+I+G4 21483.768 37 43041.536 43042.970 43248.732 44 HKY+F+R2 21586.303 37 43246.606 43248.040 43453.802 45 HKY+F+R3 21471.393 39 43020.787 43022.380 43239.183 46 HKY+F+R4 21471.361 41 43024.722 43026.482 43254.318 53 TNe 23212.914 33 46491.829 46492.971 46676.626 54 TNe+I 22133.437 34 44334.873 44336.086 44525.270 55 TNe+G4 21727.286 34 43522.572 43523.784 43712.969 56 TNe+I+G4 21717.356 35 43504.712 43505.996 43700.708 57 TNe+R2 21782.582 35 43635.164 43636.448 43831.160 58 TNe+R3 21712.362 37 43498.724 43500.158 43705.920 59 TNe+R4 21712.296 39 43502.591 43504.185 43720.987 66 TN+F 22996.000 36 46064.000 46065.359 46265.597 67 TN+F+I 21865.731 37 43805.463 43806.897 44012.659 68 TN+F+G4 21381.494 37 42836.988 42838.423 43044.184 69 TN+F+I+G4 21372.253 38 42820.506 42822.019 43033.302 70 TN+F+R2 21468.251 38 43012.503 43014.016 43225.299 71 TN+F+R3 21369.063 40 42818.126 42819.802 43042.122 72 TN+F+R4 21369.052 42 42822.104 42823.952 43057.300 79 K3P 23305.550 33 46677.101 46678.243 46861.897 80 K3P+I 22218.096 34 44504.192 44505.405 44694.589 81 K3P+G4 21852.521 34 43773.041 43774.254 43963.438 82 K3P+I+G4 21837.966 35 43745.933 43747.217 43941.929 83 K3P+R2 21896.659 35 43863.317 43864.601 44059.314 84 K3P+R3 21827.531 37 43729.063 43730.497 43936.259 85 K3P+R4 21827.429 39 43732.858 43734.451 43951.254 92 K3Pu+F 23122.378 36 46316.756 46318.114 46518.352 93 K3Pu+F+I 21961.415 37 43996.830 43998.265 44204.026 94 K3Pu+F+G4 21498.044 37 43070.087 43071.522 43277.284 95 K3Pu+F+I+G4 21483.337 38 43042.675 43044.188 43255.471 96 K3Pu+F+R2 21585.224 38 43246.449 43247.962 43459.245 97 K3Pu+F+R3 21471.105 40 43022.210 43023.886 43246.206 98 K3Pu+F+R4 21471.067 42 43026.134 43027.982 43261.330 105 TPM2+F 22822.041 36 45716.082 45717.440 45917.678 106 TPM2+F+I 21713.154 37 43500.308 43501.743 43707.504 107 TPM2+F+G4 21311.673 37 42697.345 42698.780 42904.542 108 TPM2+F+I+G4 21298.849 38 42673.697 42675.210 42886.494 109 TPM2+F+R2 21369.634 38 42815.269 42816.782 43028.065 110 TPM2+F+R3 21290.291 40 42660.582 42662.258 42884.578 111 TPM2+F+R4 21290.280 42 42664.560 42666.407 42899.756 118 TPM2u+F 22822.039 36 45716.078 45717.436 45917.674 119 TPM2u+F+I 21713.155 37 43500.310 43501.745 43707.507 120 TPM2u+F+G4 21311.689 37 42697.378 42698.813 42904.575 121 TPM2u+F+I+G4 21298.832 38 42673.664 42675.177 42886.461 122 TPM2u+F+R2 21369.633 38 42815.267 42816.780 43028.063 123 TPM2u+F+R3 21290.291 40 42660.582 42662.258 42884.578 124 TPM2u+F+R4 21290.290 42 42664.580 42666.427 42899.776 131 TPM3+F 23121.230 36 46314.459 46315.818 46516.056 132 TPM3+F+I 21961.610 37 43997.220 43998.655 44204.417 133 TPM3+F+G4 21497.751 37 43069.501 43070.936 43276.698 134 TPM3+F+I+G4 21482.992 38 43041.983 43043.496 43254.779 135 TPM3+F+R2 21586.294 38 43248.589 43250.102 43461.385 136 TPM3+F+R3 21470.760 40 43021.519 43023.195 43245.515 137 TPM3+F+R4 21470.701 42 43025.402 43027.250 43260.598 144 TPM3u+F 23121.227 36 46314.454 46315.813 46516.051 145 TPM3u+F+I 21961.610 37 43997.219 43998.654 44204.416 146 TPM3u+F+G4 21497.747 37 43069.493 43070.928 43276.689 147 TPM3u+F+I+G4 21482.990 38 43041.981 43043.494 43254.777 148 TPM3u+F+R2 21586.295 38 43248.590 43250.103 43461.386 149 TPM3u+F+R3 21470.772 40 43021.544 43023.220 43245.540 150 TPM3u+F+R4 21470.684 42 43025.368 43027.216 43260.564 157 TIMe 23212.472 34 46492.944 46494.157 46683.341 158 TIMe+I 22133.046 35 44336.091 44337.376 44532.088 159 TIMe+G4 21727.188 35 43524.377 43525.661 43720.373 160 TIMe+I+G4 21717.269 36 43506.539 43507.897 43708.135 161 TIMe+R2 21782.296 36 43636.592 43637.951 43838.189 162 TIMe+R3 21712.262 38 43500.523 43502.036 43713.319 163 TIMe+R4 21712.217 40 43504.433 43506.109 43728.429 170 TIM+F 22995.561 37 46065.122 46066.556 46272.318 171 TIM+F+I 21865.037 38 43806.074 43807.587 44018.870 172 TIM+F+G4 21381.148 38 42838.295 42839.808 43051.091 173 TIM+F+I+G4 21371.853 39 42821.707 42823.300 43040.103 174 TIM+F+R2 21467.368 39 43012.736 43014.329 43231.132 175 TIM+F+R3 21368.698 41 42819.397 42821.157 43048.993 176 TIM+F+R4 21368.666 43 42823.333 42825.270 43064.129 183 TIM2e 22744.601 34 45557.202 45558.415 45747.599 184 TIM2e+I 21720.391 35 43510.781 43512.066 43706.778 185 TIM2e+G4 21330.698 35 42731.397 42732.681 42927.393 186 TIM2e+I+G4 21317.957 36 42707.915 42709.273 42909.511 187 TIM2e+R2 21385.483 36 42842.966 42844.324 43044.562 188 TIM2e+R3 21311.767 38 42699.535 42701.048 42912.331 189 TIM2e+R4 21311.621 40 42703.241 42704.917 42927.237 196 TIM2+F 22711.068 37 45496.137 45497.571 45703.333 197 TIM2+F+I 21627.479 38 43330.958 43332.471 43543.754 198 TIM2+F+G4 21172.248 38 42420.496 42422.009 42633.292 199 TIM2+F+I+G4 21164.169 39 42406.339 42407.932 42624.735 200 TIM2+F+R2 21250.859 39 42579.719 42581.312 42798.115 201 TIM2+F+R3 21161.472 41 42404.945 42406.706 42634.541 202 TIM2+F+R4 21161.446 43 42408.892 42410.828 42649.688 209 TIM3e 23211.506 34 46491.012 46492.224 46681.409 210 TIM3e+I 22132.948 35 44335.895 44337.180 44531.892 211 TIM3e+G4 21726.608 35 43523.217 43524.501 43719.213 212 TIM3e+I+G4 21716.695 36 43505.389 43506.747 43706.985 213 TIM3e+R2 21782.534 36 43637.067 43638.426 43838.664 214 TIM3e+R3 21711.825 38 43499.651 43501.164 43712.447 215 TIM3e+R4 21711.743 40 43503.487 43505.163 43727.483 222 TIM3+F 22994.252 37 46062.504 46063.938 46269.700 223 TIM3+F+I 21865.205 38 43806.411 43807.924 44019.207 224 TIM3+F+G4 21380.441 38 42836.881 42838.394 43049.678 225 TIM3+F+I+G4 21371.201 39 42820.403 42821.996 43038.799 226 TIM3+F+R2 21468.161 39 43014.322 43015.915 43232.718 227 TIM3+F+R3 21368.551 41 42819.102 42820.863 43048.698 228 TIM3+F+R4 21368.426 43 42822.852 42824.788 43063.648 235 TVMe 22817.706 35 45705.413 45706.697 45901.409 236 TVMe+I 21797.857 36 43667.714 43669.072 43869.310 237 TVMe+G4 21428.288 36 42928.575 42929.934 43130.172 238 TVMe+I+G4 21413.111 37 42900.222 42901.657 43107.418 239 TVMe+R2 21479.686 37 43033.372 43034.807 43240.569 240 TVMe+R3 21406.122 39 42890.245 42891.838 43108.641 241 TVMe+R4 21406.017 41 42894.033 42895.794 43123.629 248 TVM+F 22815.643 38 45707.286 45708.799 45920.082 249 TVM+F+I 21707.713 39 43493.427 43495.020 43711.823 250 TVM+F+G4 21307.950 39 42693.901 42695.494 42912.297 251 TVM+F+I+G4 21295.084 40 42670.168 42671.844 42894.164 252 TVM+F+R2 21366.214 40 42812.428 42814.104 43036.424 253 TVM+F+R3 21286.823 42 42657.646 42659.494 42892.842 254 TVM+F+R4 21286.749 44 42661.498 42663.525 42907.893 261 SYM 22738.988 36 45549.977 45551.335 45751.573 262 SYM+I 21715.761 37 43505.521 43506.956 43712.718 263 SYM+G4 21327.259 37 42728.517 42729.952 42935.714 264 SYM+I+G4 21314.475 38 42704.950 42706.463 42917.746 265 SYM+R2 21382.507 38 42841.014 42842.527 43053.810 266 SYM+R3 21308.460 40 42696.920 42698.596 42920.916 267 SYM+R4 21308.452 42 42700.905 42702.752 42936.100 274 GTR+F 22704.657 39 45487.313 45488.907 45705.709 275 GTR+F+I 21622.109 40 43324.218 43325.894 43548.214 276 GTR+F+G4 21168.172 40 42416.343 42418.019 42640.339 277 GTR+F+I+G4 21160.195 41 42402.391 42404.151 42631.987 278 GTR+F+R2 21247.036 41 42576.071 42577.832 42805.667 279 GTR+F+R3 21157.735 43 42401.470 42403.407 42642.266 280 GTR+F+R4 21157.666 45 42405.331 42407.452 42657.327 Akaike Information Criterion: GTR+F+R3 Corrected Akaike Information Criterion: GTR+F+R3 Bayesian Information Criterion: TIM2+F+I+G4 Best-fit model: TIM2+F+I+G4 chosen according to BIC All model information printed to example.phy.model.gz CPU time for ModelFinder: 0.059 seconds (0h:0m:0s) Wall-clock time for ModelFinder: 0.093 seconds (0h:0m:0s) NOTE: 2 MB RAM (0 GB) is required! Estimate model parameters (epsilon = 0.100) Thoroughly optimizing +I+G parameters from 10 start values... Init pinv, alpha: 0.000, 1.000 / Estimate: 0.000, 0.484 / LogL: -21172.268 Init pinv, alpha: 0.038, 1.000 / Estimate: 0.047, 0.538 / LogL: -21168.912 Init pinv, alpha: 0.076, 1.000 / Estimate: 0.100, 0.618 / LogL: -21165.840 Init pinv, alpha: 0.114, 1.000 / Estimate: 0.123, 0.663 / LogL: -21164.910 Init pinv, alpha: 0.153, 1.000 / Estimate: 0.156, 0.736 / LogL: -21164.117 Init pinv, alpha: 0.191, 1.000 / Estimate: 0.185, 0.813 / LogL: -21164.278 Init pinv, alpha: 0.229, 1.000 / Estimate: 0.190, 0.826 / LogL: -21164.407 Init pinv, alpha: 0.267, 1.000 / Estimate: 0.190, 0.828 / LogL: -21164.424 Init pinv, alpha: 0.305, 1.000 / Estimate: 0.190, 0.827 / LogL: -21164.417 Init pinv, alpha: 0.343, 1.000 / Estimate: 0.189, 0.823 / LogL: -21164.376 Optimal pinv,alpha: 0.156, 0.736 / LogL: -21164.117 Parameters optimization took 6.401 sec Computing ML distances based on estimated model parameters... 0.015 sec Computing BIONJ tree... 0.001 seconds Log-likelihood of BIONJ tree: -21157.760 -------------------------------------------------------------------- | INITIALIZING CANDIDATE TREE SET | -------------------------------------------------------------------- Generating 98 parsimony trees... 0.723 second Computing log-likelihood of 98 initial trees ... 2.339 seconds Current best score: -21157.760 Do NNI search on 20 best initial trees Estimate model parameters (epsilon = 0.100) BETTER TREE FOUND at iteration 1: -21157.727 Estimate model parameters (epsilon = 0.100) BETTER TREE FOUND at iteration 2: -21152.525 Iteration 10 / LogL: -21153.243 / Time: 0h:0m:11s Iteration 20 / LogL: -21152.566 / Time: 0h:0m:13s Finish initializing candidate tree set (2) Current best tree score: -21152.525 / CPU time: 6.790 Number of iterations: 20 -------------------------------------------------------------------- | OPTIMIZING CANDIDATE TREE SET | -------------------------------------------------------------------- Iteration 30 / LogL: -21152.700 / Time: 0h:0m:15s (0h:0m:38s left) Iteration 40 / LogL: -21153.479 / Time: 0h:0m:17s (0h:0m:27s left) Iteration 50 / LogL: -21152.716 / Time: 0h:0m:19s (0h:0m:20s left) Iteration 60 / LogL: -21152.566 / Time: 0h:0m:21s (0h:0m:15s left) Iteration 70 / LogL: -21152.535 / Time: 0h:0m:23s (0h:0m:10s left) Iteration 80 / LogL: -21153.337 / Time: 0h:0m:25s (0h:0m:7s left) Iteration 90 / LogL: -21152.533 / Time: 0h:0m:26s (0h:0m:3s left) Iteration 100 / LogL: -21152.734 / Time: 0h:0m:28s (0h:0m:0s left) TREE SEARCH COMPLETED AFTER 103 ITERATIONS / Time: 0h:0m:29s -------------------------------------------------------------------- | FINALIZING TREE SEARCH | -------------------------------------------------------------------- Performs final model parameters optimization Estimate model parameters (epsilon = 0.010) 1. Initial log-likelihood: -21152.525 Optimal log-likelihood: -21152.523 Rate parameters: A-C: 5.58054 A-G: 7.64552 A-T: 5.58054 C-G: 1.00000 C-T: 22.62483 G-T: 1.00000 Base frequencies: A: 0.355 C: 0.228 G: 0.192 T: 0.225 Proportion of invariable sites: 0.157 Gamma shape alpha: 0.736 Parameters optimization took 1 rounds (0.104 sec) BEST SCORE FOUND : -21152.523 Total tree length: 4.218 Total number of iterations: 103 CPU time used for tree search: 40.437 sec (0h:0m:40s) Wall-clock time used for tree search: 22.912 sec (0h:0m:22s) Total CPU time used: 52.006 sec (0h:0m:52s) Total wall-clock time used: 29.729 sec (0h:0m:29s) Analysis results written to: IQ-TREE report: example.phy.iqtree Maximum-likelihood tree: example.phy.treefile Likelihood distances: example.phy.mldist Screen log file: example.phy.log Date and Time: Mon Jun 15 15:40:45 2020 real 0m30.060s user 0m52.118s sys 0m0.466s + rm -rf /tmp/iqtree-test.TlpixL 141.22user 1.62system 2:11.43elapsed 108%CPU (0avgtext+0avgdata 12080maxresident)k 37360inputs+2576outputs (40major+100298minor)pagefaults 0swaps rm example.short make[1]: Leaving directory '/build/iqtree-1.6.9+dfsg' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/iqtree-1.6.9+dfsg' dh_auto_install -Bbuild.omp cd build.omp && make -j10 install DESTDIR=/build/iqtree-1.6.9\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' /usr/bin/cmake -S/build/iqtree-1.6.9+dfsg -B/build/iqtree-1.6.9+dfsg/build.omp --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.omp/CMakeFiles /build/iqtree-1.6.9+dfsg/build.omp/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/depend make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/depend make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/depend make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/gsl /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/gsl /build/iqtree-1.6.9+dfsg/build.omp/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/ncl /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/ncl /build/iqtree-1.6.9+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pll /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/pll /build/iqtree-1.6.9+dfsg/build.omp/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/lbfgsb /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/lbfgsb /build/iqtree-1.6.9+dfsg/build.omp/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/nclextra /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/nclextra /build/iqtree-1.6.9+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/whtest /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/whtest /build/iqtree-1.6.9+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/sprng /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/sprng /build/iqtree-1.6.9+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/vectorclass /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/vectorclass /build/iqtree-1.6.9+dfsg/build.omp/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'lbfgsb/CMakeFiles/lbfgsb.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'vectorclass/CMakeFiles/vectorclass.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 1%] Built target lbfgsb make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend [ 2%] Built target vectorclass make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/utils /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/utils /build/iqtree-1.6.9+dfsg/build.omp/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'gsl/CMakeFiles/gsl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'sprng/CMakeFiles/sprng.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build [ 6%] Built target gsl [ 10%] Built target sprng make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'ncl/CMakeFiles/ncl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'nclextra/CMakeFiles/nclextra.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 14%] Built target nclextra make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pda /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/pda /build/iqtree-1.6.9+dfsg/build.omp/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'pll/CMakeFiles/pll.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 23%] Built target ncl make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/alignment /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/alignment /build/iqtree-1.6.9+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'CMakeFiles/kernelsse.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'whtest/CMakeFiles/whtest.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build [ 39%] Built target kernelsse [ 41%] Built target pll [ 47%] Built target whtest make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'utils/CMakeFiles/utils.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 52%] Built target utils make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'pda/CMakeFiles/pda.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend [ 62%] Built target pda make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/model /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/model /build/iqtree-1.6.9+dfsg/build.omp/model/CMakeFiles/model.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'alignment/CMakeFiles/alignment.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 66%] Built target alignment make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'model/CMakeFiles/model.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 83%] Built target model make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/tree /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/tree /build/iqtree-1.6.9+dfsg/build.omp/tree/CMakeFiles/tree.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[4]: Nothing to be done for 'tree/CMakeFiles/tree.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 97%] Built target tree make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' cd /build/iqtree-1.6.9+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp /build/iqtree-1.6.9+dfsg/build.omp/CMakeFiles/iqtree.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' [ 97%] Linking CXX executable iqtree /usr/bin/cmake -E cmake_link_script CMakeFiles/iqtree.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/iqtree-1.6.9+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -Wl,-z,relro -Wl,-z,now -rdynamic -rdynamic CMakeFiles/iqtree.dir/main/main.cpp.o CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o CMakeFiles/iqtree.dir/main/phylotesting.cpp.o CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o -o iqtree -L/build/iqtree-1.6.9+dfsg/lib32 -Wl,-rpath,/build/iqtree-1.6.9+dfsg/lib32: pll/libpll.a ncl/libncl.a nclextra/libnclextra.a utils/libutils.a pda/libpda.a lbfgsb/liblbfgsb.a whtest/libwhtest.a sprng/libsprng.a vectorclass/libvectorclass.a model/libmodel.a gsl/libgsl.a alignment/libalignment.a tree/libtree.a -lm libkernelsse.a nclextra/libnclextra.a pll/libpll.a model/libmodel.a utils/libutils.a lbfgsb/liblbfgsb.a -lz alignment/libalignment.a ncl/libncl.a gsl/libgsl.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' [100%] Built target iqtree make[3]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.omp/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/bin/iqtree -- Set runtime path of "/build/iqtree-1.6.9+dfsg/debian/iqtree/usr/bin/iqtree" to "" -- Installing: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./models.nex -- Installing: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./example.phy -- Installing: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./example.nex -- Installing: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./example.cf make[2]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' dh_auto_install -Bbuild.serial cd build.serial && make -j10 install DESTDIR=/build/iqtree-1.6.9\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' /usr/bin/cmake -S/build/iqtree-1.6.9+dfsg -B/build/iqtree-1.6.9+dfsg/build.serial --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.serial/CMakeFiles /build/iqtree-1.6.9+dfsg/build.serial/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/depend make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/depend make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/depend make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/gsl /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/gsl /build/iqtree-1.6.9+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/ncl /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/ncl /build/iqtree-1.6.9+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pll /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/pll /build/iqtree-1.6.9+dfsg/build.serial/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/lbfgsb /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/lbfgsb /build/iqtree-1.6.9+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/nclextra /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/nclextra /build/iqtree-1.6.9+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/whtest /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/whtest /build/iqtree-1.6.9+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/sprng /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/sprng /build/iqtree-1.6.9+dfsg/build.serial/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/vectorclass /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/vectorclass /build/iqtree-1.6.9+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'vectorclass/CMakeFiles/vectorclass.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'lbfgsb/CMakeFiles/lbfgsb.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'gsl/CMakeFiles/gsl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'sprng/CMakeFiles/sprng.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build [ 1%] Built target vectorclass make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'ncl/CMakeFiles/ncl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'nclextra/CMakeFiles/nclextra.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'pll/CMakeFiles/pll.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'CMakeFiles/kernelsse.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'whtest/CMakeFiles/whtest.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 2%] Built target lbfgsb make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend [ 14%] Built target sprng [ 19%] Built target gsl make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/utils /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/utils /build/iqtree-1.6.9+dfsg/build.serial/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= [ 20%] Built target ncl make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend [ 23%] Built target kernelsse [ 37%] Built target whtest make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/alignment /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/alignment /build/iqtree-1.6.9+dfsg/build.serial/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= [ 40%] Built target nclextra make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend [ 47%] Built target pll make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pda /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/pda /build/iqtree-1.6.9+dfsg/build.serial/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'utils/CMakeFiles/utils.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build [ 52%] Built target utils make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/model /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/model /build/iqtree-1.6.9+dfsg/build.serial/model/CMakeFiles/model.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'alignment/CMakeFiles/alignment.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build [ 56%] Built target alignment make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'pda/CMakeFiles/pda.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build [ 66%] Built target pda make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'model/CMakeFiles/model.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 83%] Built target model make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/tree /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/tree /build/iqtree-1.6.9+dfsg/build.serial/tree/CMakeFiles/tree.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'tree/CMakeFiles/tree.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [ 97%] Built target tree make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' cd /build/iqtree-1.6.9+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial /build/iqtree-1.6.9+dfsg/build.serial/CMakeFiles/iqtree.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Nothing to be done for 'CMakeFiles/iqtree.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' [100%] Built target iqtree make[3]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.serial/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/bin/iqtree -- Set runtime path of "/build/iqtree-1.6.9+dfsg/debian/iqtree/usr/bin/iqtree" to "" -- Up-to-date: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./models.nex -- Up-to-date: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./example.phy -- Up-to-date: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./example.nex -- Up-to-date: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./example.cf make[2]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' dh_auto_install -Bbuild.mpi cd build.mpi && make -j10 install DESTDIR=/build/iqtree-1.6.9\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' /usr/bin/cmake -S/build/iqtree-1.6.9+dfsg -B/build/iqtree-1.6.9+dfsg/build.mpi --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f CMakeFiles/mympi.dir/build.make CMakeFiles/mympi.dir/depend make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/depend make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/depend make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/depend make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles/mympi.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/gsl /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/gsl /build/iqtree-1.6.9+dfsg/build.mpi/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/ncl /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/ncl /build/iqtree-1.6.9+dfsg/build.mpi/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pll /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/pll /build/iqtree-1.6.9+dfsg/build.mpi/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/lbfgsb /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/lbfgsb /build/iqtree-1.6.9+dfsg/build.mpi/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/nclextra /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/nclextra /build/iqtree-1.6.9+dfsg/build.mpi/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/whtest /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/whtest /build/iqtree-1.6.9+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/sprng /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/sprng /build/iqtree-1.6.9+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/vectorclass /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/vectorclass /build/iqtree-1.6.9+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'lbfgsb/CMakeFiles/lbfgsb.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'vectorclass/CMakeFiles/vectorclass.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build [ 2%] Built target lbfgsb make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend [ 3%] Built target vectorclass make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/utils /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/utils /build/iqtree-1.6.9+dfsg/build.mpi/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'gsl/CMakeFiles/gsl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 7%] Built target gsl make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'sprng/CMakeFiles/sprng.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build [ 11%] Built target sprng make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f CMakeFiles/mympi.dir/build.make CMakeFiles/mympi.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'nclextra/CMakeFiles/nclextra.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'ncl/CMakeFiles/ncl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'CMakeFiles/kernelsse.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'CMakeFiles/mympi.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'pll/CMakeFiles/pll.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 21%] Built target ncl make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend [ 27%] Built target nclextra make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend [ 30%] Built target mympi [ 42%] Built target pll [ 43%] Built target kernelsse make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/alignment /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/alignment /build/iqtree-1.6.9+dfsg/build.mpi/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/pda /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/pda /build/iqtree-1.6.9+dfsg/build.mpi/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'whtest/CMakeFiles/whtest.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'utils/CMakeFiles/utils.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build [ 49%] Built target whtest [ 54%] Built target utils make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'pda/CMakeFiles/pda.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'alignment/CMakeFiles/alignment.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/model /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/model /build/iqtree-1.6.9+dfsg/build.mpi/model/CMakeFiles/model.dir/DependInfo.cmake --color= [ 63%] Built target pda [ 67%] Built target alignment make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'model/CMakeFiles/model.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 83%] Built target model make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/tree /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/tree /build/iqtree-1.6.9+dfsg/build.mpi/tree/CMakeFiles/tree.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'tree/CMakeFiles/tree.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [ 97%] Built target tree make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' cd /build/iqtree-1.6.9+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles/iqtree.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/build make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[4]: Nothing to be done for 'CMakeFiles/iqtree.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' [100%] Built target iqtree make[3]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.9+dfsg/build.mpi/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/bin/iqtree-mpi -- Set runtime path of "/build/iqtree-1.6.9+dfsg/debian/iqtree/usr/bin/iqtree-mpi" to "" -- Up-to-date: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./models.nex -- Up-to-date: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./example.phy -- Up-to-date: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./example.nex -- Up-to-date: /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/./example.cf make[2]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' dh override_dh_auto_install make[1]: Leaving directory '/build/iqtree-1.6.9+dfsg' debian/rules override_dh_install make[1]: Entering directory '/build/iqtree-1.6.9+dfsg' dh_install find debian -name iqtree-mpi -exec chrpath --delete \{\} \; find debian -name iqtree-omp -exec chrpath --delete \{\} \; make[1]: Leaving directory '/build/iqtree-1.6.9+dfsg' dh_installdocs dh_installchangelogs debian/rules override_dh_installexamples make[1]: Entering directory '/build/iqtree-1.6.9+dfsg' # somehow the example config is installed in /usr by cmake find debian/iqtree -name example.cf -delete dh_installexamples # remove example files in unusual dir rm -f debian/*/usr/models.nex rm -f debian/*/usr/example.[np][eh][xy] make[1]: Leaving directory '/build/iqtree-1.6.9+dfsg' debian/rules override_dh_installman make[1]: Entering directory '/build/iqtree-1.6.9+dfsg' mkdir -p /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/share/man/man1/ help2man --no-info --no-discard-stderr --help-option="-h" \ --name='efficient phylogenetic software by maximum likelihood' \ --version-string="1.6.9+dfsg" /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/bin/iqtree > /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/share/man/man1//iqtree.1 help2man --no-info --no-discard-stderr --help-option="-h" \ --name='efficient phylogenetic software by maximum likelihood (multiprocessor version)' \ --version-string="1.6.9+dfsg" /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/bin/iqtree-omp > /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/share/man/man1//iqtree-omp.1 help2man --no-info --no-discard-stderr --help-option="-h" \ --name='efficient phylogenetic software by maximum likelihood (multiprocessor version)' \ --version-string="1.6.9+dfsg" /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/bin/iqtree-mpi > /build/iqtree-1.6.9+dfsg/debian/iqtree/usr/share/man/man1//iqtree-mpi.1 make[1]: Leaving directory '/build/iqtree-1.6.9+dfsg' dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'iqtree' in '../iqtree_1.6.9+dfsg-1_i386.deb'. dpkg-deb: building package 'iqtree-dbgsym' in '../iqtree-dbgsym_1.6.9+dfsg-1_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../iqtree_1.6.9+dfsg-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: user script /srv/workspace/pbuilder/8039/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/8039/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/8039 and its subdirectories I: Current time: Mon Jun 15 15:46:21 +14 2020 I: pbuilder-time-stamp: 1592185581