Diff of the two buildlogs: -- --- b1/build.log 2020-06-15 01:08:21.919361068 +0000 +++ b2/build.log 2020-06-15 01:46:22.642846582 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Jul 17 19:26:19 -12 2021 -I: pbuilder-time-stamp: 1626593179 +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 @@ -18,7 +18,7 @@ I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error -gpgv: Signature made Wed Jan 2 01:51:35 2019 -12 +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 @@ -28,138 +28,172 @@ 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/47667/tmp/hooks/D02_print_environment starting +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 - BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='i386' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=18' - DISTRIBUTION='' - HOME='/root' - HOST_ARCH='i386' + 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='b6e47d0da4234cc19d6857f244b97c81' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - LD_LIBRARY_PATH='/usr/lib/libeatmydata' - LD_PRELOAD='libeatmydata.so' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='47667' - PS1='# ' - PS2='> ' + 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' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.eArLrqDMJT/pbuilderrc_mEwZ --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.eArLrqDMJT/b1 --logfile b1/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+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://85.184.249.68:3128' + 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 profitbricks-build16-i386 4.19.0-9-amd64 #1 SMP Debian 4.19.118-2+deb10u1 (2020-06-07) x86_64 GNU/Linux + 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 5476 - -rwxr-xr-x 1 root root 1302248 Apr 17 2019 bash - -rwxr-xr-x 3 root root 38280 Jul 10 2019 bunzip2 - -rwxr-xr-x 3 root root 38280 Jul 10 2019 bzcat - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep - -rwxr-xr-x 3 root root 38280 Jul 10 2019 bzip2 - -rwxr-xr-x 1 root root 17768 Jul 10 2019 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore - -rwxr-xr-x 1 root root 38692 Feb 28 2019 cat - -rwxr-xr-x 1 root root 75588 Feb 28 2019 chgrp - -rwxr-xr-x 1 root root 63268 Feb 28 2019 chmod - -rwxr-xr-x 1 root root 75588 Feb 28 2019 chown - -rwxr-xr-x 1 root root 153732 Feb 28 2019 cp - -rwxr-xr-x 1 root root 132820 Jan 17 2019 dash - -rwxr-xr-x 1 root root 120676 Feb 28 2019 date - -rwxr-xr-x 1 root root 92040 Feb 28 2019 dd - -rwxr-xr-x 1 root root 100620 Feb 28 2019 df - -rwxr-xr-x 1 root root 149736 Feb 28 2019 dir - -rwxr-xr-x 1 root root 79412 Jan 9 2019 dmesg - lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname - -rwxr-xr-x 1 root root 34532 Feb 28 2019 echo - -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep - -rwxr-xr-x 1 root root 34532 Feb 28 2019 false - -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep - -rwxr-xr-x 1 root root 67700 Jan 9 2019 findmnt - -rwsr-xr-x 1 root root 30112 Apr 22 2020 fusermount - -rwxr-xr-x 1 root root 206392 Jan 7 2019 grep - -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip - -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe - -rwxr-xr-x 1 root root 100952 Jan 5 2019 gzip - -rwxr-xr-x 1 root root 21916 Sep 26 2018 hostname - -rwxr-xr-x 1 root root 79752 Feb 28 2019 ln - -rwxr-xr-x 1 root root 55400 Jul 26 2018 login - -rwxr-xr-x 1 root root 149736 Feb 28 2019 ls - -rwxr-xr-x 1 root root 112032 Jan 9 2019 lsblk - -rwxr-xr-x 1 root root 87972 Feb 28 2019 mkdir - -rwxr-xr-x 1 root root 79748 Feb 28 2019 mknod - -rwxr-xr-x 1 root root 46916 Feb 28 2019 mktemp - -rwxr-xr-x 1 root root 42348 Jan 9 2019 more - -rwsr-xr-x 1 root root 50592 Jan 9 2019 mount - -rwxr-xr-x 1 root root 13724 Jan 9 2019 mountpoint - -rwxr-xr-x 1 root root 157832 Feb 28 2019 mv - lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 38660 Feb 28 2019 pwd - lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash - -rwxr-xr-x 1 root root 46852 Feb 28 2019 readlink - -rwxr-xr-x 1 root root 75588 Feb 28 2019 rm - -rwxr-xr-x 1 root root 42756 Feb 28 2019 rmdir - -rwxr-xr-x 1 root root 22276 Jan 21 2019 run-parts - -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Jul 17 02:47 sh -> dash - -rwxr-xr-x 1 root root 34532 Feb 28 2019 sleep - -rwxr-xr-x 1 root root 79652 Feb 28 2019 stty - -rwsr-xr-x 1 root root 71072 Jan 9 2019 su - -rwxr-xr-x 1 root root 34564 Feb 28 2019 sync - -rwxr-xr-x 1 root root 504024 Apr 23 2019 tar - -rwxr-xr-x 1 root root 13860 Jan 21 2019 tempfile - -rwxr-xr-x 1 root root 104292 Feb 28 2019 touch - -rwxr-xr-x 1 root root 34532 Feb 28 2019 true - -rwxr-xr-x 1 root root 17768 Apr 22 2020 ulockmgr_server - -rwsr-xr-x 1 root root 30108 Jan 9 2019 umount - -rwxr-xr-x 1 root root 34532 Feb 28 2019 uname - -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress - -rwxr-xr-x 1 root root 149736 Feb 28 2019 vdir - -rwxr-xr-x 1 root root 34208 Jan 9 2019 wdctl - -rwxr-xr-x 1 root root 946 Jan 21 2019 which - lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat - -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp - -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff - -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep - -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep - -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce - -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep - -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless - -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore - -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew -I: user script /srv/workspace/pbuilder/47667/tmp/hooks/D02_print_environment finished + 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 @@ -311,7 +345,7 @@ 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 1s (73.5 MB/s) +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.) @@ -739,7 +773,7 @@ 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" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b +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 @@ -932,7 +966,7 @@ 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 -j18 "INSTALL=install --strip-program=true" + 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 @@ -940,121 +974,133 @@ 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 -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= +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/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= +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/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= +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/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= +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= +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/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 -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/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 vectorclass +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 vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build +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 gsl -Scanning dependencies of target nclextra +Scanning dependencies of target vectorclass make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' -Scanning dependencies of target lbfgsb -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]: 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]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' -make[4]: Entering 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' +[ 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' -Scanning dependencies of target ncl +[ 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 ncl/CMakeFiles/ncl.dir/build.make 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 -[ 0%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o -[ 1%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.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/store.c.o -c /build/iqtree-1.6.9+dfsg/sprng/store.c -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 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' -[ 1%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o -[ 2%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.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 -[ 3%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o -[ 4%] 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/makeseed.c.o -c /build/iqtree-1.6.9+dfsg/sprng/makeseed.c -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 -[ 4%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o -[ 5%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.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/memory.c.o -c /build/iqtree-1.6.9+dfsg/sprng/memory.c -[ 5%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.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/checkid.c.o -c /build/iqtree-1.6.9+dfsg/sprng/checkid.c [ 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/binomial_tpe.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/binomial_tpe.cpp -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 -[ 7%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o -[ 8%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o -[ 8%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -[ 8%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.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 -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 -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 -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 -[ 9%] 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 -[ 10%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -Scanning dependencies of target kernelsse +[ 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 CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build -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' -make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.omp' -[ 11%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -[ 11%] Building C object pll/CMakeFiles/pll.dir/alignment.c.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 +/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 -[ 12%] 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 -[ 12%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o +[ 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 -[ 12%] 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 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); ^~~~~~~~~~~~~~~ -[ 13%] 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 -[ 14%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o +[ 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); ^~~~~~~~~~~~~~~ -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 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] @@ -1062,64 +1108,54 @@ /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/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 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 -[ 15%] 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 -/usr/bin/ranlib libvectorclass.a -[ 16%] Linking C static library libsprng.a +[ 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 -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' -[ 17%] 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 cd /build/iqtree-1.6.9+dfsg/build.omp/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 -[ 17%] Built target vectorclass -[ 17%] 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 /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 -[ 18%] 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 make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' -[ 18%] Built target sprng -[ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -[ 20%] 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 -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 -[ 20%] Linking CXX static library libgsl.a -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/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.omp' -[ 20%] Built target gsl -[ 20%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o +[ 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 -[ 21%] 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 -[ 22%] 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 +[ 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': -[ 23%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o /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); ^~~~~~~~~~~~~~~~~~ -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 /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 @@ -1138,6 +1174,33 @@ /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); @@ -1154,43 +1217,32 @@ /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); ^~~~~~~~~~~~~~~~~~ -[ 23%] 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 -[ 24%] 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 -[ 24%] 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 ); - ^~~~~~~~~~~~~~~~~~~~~~~~ -[ 24%] 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 -[ 25%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o +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 -[ 26%] 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 -[ 26%] 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 -[ 26%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o +[ 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 -[ 27%] 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 /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); ^~~~~~~~~~~~~~~~~~~~~~ -[ 27%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o +[ 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 -[ 28%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o +[ 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 -[ 29%] 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 -[ 29%] 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/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); @@ -1208,28 +1260,31 @@ /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)); ^~~~~~~~~~~~~~~~~~ -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); - ^~~~~~~~~~~~~~~ +[ 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); ^~~~~~~~~~~~~~~ -[ 31%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o -[ 31%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.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/newviewGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.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/nxsexception.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsexception.cpp -[ 31%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.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/genericParallelization.c.o -c /build/iqtree-1.6.9+dfsg/pll/genericParallelization.c -[ 32%] 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 -In file included from /build/iqtree-1.6.9+dfsg/pll/genericParallelization.c:43: +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); ^~~~~~~~~~~~~~~ -[ 32%] 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 +[ 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); @@ -1258,84 +1313,87 @@ /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)); ^~~~~~~~~~~~~~~~~~ -[ 33%] 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 -[ 34%] 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 -[ 35%] 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 -[ 35%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o +[ 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 -/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' -[ 36%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o -[ 36%] Built target whtest +[ 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 -[ 37%] 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 +/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); ^~~~~~~~~~~~~~~ -[ 37%] Building C object pll/CMakeFiles/pll.dir/queue.c.o +[ 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 -[ 38%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o +[ 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); ^~~~~~~~~~~~~~~ -[ 38%] Building C object pll/CMakeFiles/pll.dir/recom.c.o +[ 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 -[ 39%] 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 -[ 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 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); ^~~~~~~~~~~~~~~ -[ 41%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o +[ 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); ^~~~~~~~~~~~~~~ -[ 41%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o +[ 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); ^~~~~~~~~~~~~~~ -[ 42%] 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 -/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.omp' -[ 43%] Building C object pll/CMakeFiles/pll.dir/stack.c.o +[ 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 -[ 43%] 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= -[ 43%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o +[ 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 -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' -[ 43%] 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 -[ 44%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o -[ 45%] Building C object pll/CMakeFiles/pll.dir/trash.c.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 +[ 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 @@ -1345,20 +1403,16 @@ /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 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 -[ 46%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o +[ 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); ^~~~~~~~~~~~~~~ -[ 46%] Building C object pll/CMakeFiles/pll.dir/utils.c.o +[ 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 -[ 47%] 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 -[ 48%] 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 +[ 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); @@ -1421,147 +1475,107 @@ /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) * ^~~~~~~~~~~~~~~~~~ -[ 48%] 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 -/usr/bin/ar qc libnclextra.a CMakeFiles/nclextra.dir/mpdablock.cpp.o CMakeFiles/nclextra.dir/msetsblock.cpp.o CMakeFiles/nclextra.dir/msplitsblock.cpp.o CMakeFiles/nclextra.dir/modelsblock.cpp.o -/usr/bin/ranlib libnclextra.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' -[ 48%] Built target nclextra -[ 48%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o -make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend -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 -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= -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' -[ 49%] 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 -[ 50%] 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 -[ 50%] 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 -[ 50%] 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 -[ 51%] 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 -[ 52%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o +[ 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 -[ 52%] 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/pdnetwork.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdnetwork.cpp -[ 53%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o +[ 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 -[ 53%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o +[ 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 -[ 54%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o +[ 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/pdtreeset.cpp.o [ 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 -[ 58%] 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 -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 -/usr/bin/ranlib libncl.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' -[ 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.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= -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' -[ 58%] 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 -[ 58%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o [ 59%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o -[ 60%] 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/pattern.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/pattern.cpp 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 -[ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o -[ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o +[ 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 -[ 62%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o +[ 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 -[ 63%] 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 -/usr/bin/ranlib libpll.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' -[ 63%] Built target pll -/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) { - ^~~~~ -[ 64%] 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 -/usr/bin/ranlib libpda.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' -[ 64%] Built target pda -[ 65%] Linking CXX static library libutils.a +[ 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' -[ 65%] Built target utils +[ 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' -[ 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.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 -[ 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/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/modeldna.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modeldna.cpp -[ 68%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o -[ 69%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o -[ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o -[ 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/modelprotein.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelprotein.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/modelfactory.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelfactory.cpp -[ 70%] 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/modelset.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelset.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/modelsubst.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelsubst.cpp -[ 71%] 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/partitionmodel.cpp.o -c /build/iqtree-1.6.9+dfsg/model/partitionmodel.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/partitionmodelplen.cpp.o -c /build/iqtree-1.6.9+dfsg/model/partitionmodelplen.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/rategammainvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rategammainvar.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/rateheterogeneity.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterogeneity.cpp -[ 71%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -[ 72%] 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/ratemeyerdiscrete.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerdiscrete.cpp -[ 73%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o -[ 74%] 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/ratemeyerhaeseler.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerhaeseler.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/rateinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateinvar.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/rategamma.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rategamma.cpp -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: +/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); ^~~~~ @@ -1574,6 +1588,13 @@ /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] @@ -1592,8 +1613,11 @@ /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/modelprotein.h:23, - from /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:20: +/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); ^~~~~ @@ -1606,13 +1630,6 @@ /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/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); @@ -1638,11 +1655,8 @@ /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/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/modelbin.h:23, - from /build/iqtree-1.6.9+dfsg/model/modelbin.cpp:20: +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); ^~~~~ @@ -1655,6 +1669,10 @@ /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); @@ -1668,12 +1686,8 @@ /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*); ^~~~~ -[ 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 +[ 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) { ^~~~~ @@ -1686,6 +1700,26 @@ /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 @@ -1694,14 +1728,6 @@ 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 -[ 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 -[ 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 -[ 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 -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 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] @@ -1716,10 +1742,8 @@ /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/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/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 +[ 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] @@ -1734,8 +1758,9 @@ /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: +[ 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); ^~~~~ @@ -1748,15 +1773,20 @@ /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: +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); ^~~~~ -/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/modelunrest.h:11, - from /build/iqtree-1.6.9+dfsg/model/modelunrest.cpp:8: +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); ^~~~~ @@ -1769,7 +1799,26 @@ /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:8: +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); ^~~~~ @@ -1782,18 +1831,7 @@ /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); - ^~~~~ +/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: @@ -1836,7 +1874,9 @@ /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/modelfactorymixlen.cpp:12: +/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); ^~~~~ @@ -1849,8 +1889,9 @@ /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: +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); ^~~~~ @@ -1863,13 +1904,6 @@ /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%] 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 -/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 -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' -[ 81%] Built target alignment [ 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 @@ -1891,43 +1925,27 @@ 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' -[ 84%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o -[ 85%] 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/phylosupertree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertree.cpp -[ 86%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.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 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-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 -[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o +[ 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 -[ 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/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 -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 -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 -[ 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/phylosupertreeplen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertreeplen.cpp -[ 93%] 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/phylotree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotree.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/phylotreemixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreemixlen.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 -[ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.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 -In file included from /build/iqtree-1.6.9+dfsg/tree/phylotreesse.cpp:35: +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); ^~~~~ @@ -1940,9 +1958,24 @@ /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/iqtree.cpp:29: +[ 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); ^~~~~ @@ -1969,8 +2002,9 @@ /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: +[ 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); ^~~~~ @@ -1983,16 +2017,16 @@ /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 -/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] - } - ^ [ 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 @@ -2007,12 +2041,12 @@ 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' -[ 98%] 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.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 -[ 98%] Building CXX object CMakeFiles/iqtree.dir/main/phylotesting.cpp.o +[ 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] @@ -2021,7 +2055,7 @@ /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/phylotesting.cpp:20: +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); ^~~~~ @@ -2034,11 +2068,15 @@ /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: +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:35: +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); ^~~~~ @@ -2051,22 +2089,18 @@ /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/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/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: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] } @@ -2082,7 +2116,7 @@ # 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 -j18 "INSTALL=install --strip-program=true" + 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 @@ -2095,126 +2129,111 @@ 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/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 -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 +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/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= +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/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= +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/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= +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= -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= 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 -Scanning dependencies of target sprng 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' -Scanning dependencies of target lbfgsb -Scanning dependencies of target nclextra make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' -Scanning dependencies of target ncl +[ 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 lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build -make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build -[ 1%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o +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' -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 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 -[ 3%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o -[ 3%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o -[ 3%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o -[ 4%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o -[ 4%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o -[ 5%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o -[ 5%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o -[ 6%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o -[ 6%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o -[ 7%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.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 -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 -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/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 -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 -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 -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 pll -Scanning dependencies of target whtest -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 -[ 7%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o 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' -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 make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build -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 -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 make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' -[ 8%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o -make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build -[ 8%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.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 -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 -make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' -Scanning dependencies of target kernelsse -[ 9%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -make[4]: Leaving 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 -make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build -make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.serial' -[ 9%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o +[ 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 -[ 10%] 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 -[ 11%] 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 -[ 12%] 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 -[ 12%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o +[ 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); ^~~~~~~~~~~~~~~ -[ 12%] 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 -[ 13%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o +[ 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 -[ 14%] 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 -[ 14%] Linking CXX static library libvectorclass.a -[ 14%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o +[ 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 -cd /build/iqtree-1.6.9+dfsg/build.serial/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake -[ 15%] 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 -cd /build/iqtree-1.6.9+dfsg/build.serial/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 -[ 16%] 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 -/usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -/usr/bin/ranlib libvectorclass.a -[ 17%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' -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 +[ 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); @@ -2226,22 +2245,29 @@ /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)); ^~~~~~~~~~~~~~~~~~ -[ 18%] Linking C static library libsprng.a -cd /build/iqtree-1.6.9+dfsg/build.serial/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake -[ 18%] Built target vectorclass -cd /build/iqtree-1.6.9+dfsg/build.serial/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 -[ 19%] 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 -[ 19%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o +[ 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/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 +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 -[ 19%] 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 +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); @@ -2271,8 +2297,29 @@ /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); ^~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' +[ 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); @@ -2289,25 +2336,24 @@ /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); ^~~~~~~~~~~~~~~~~~ -/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 -/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); - ^~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' -[ 19%] Built target sprng -[ 19%] Built target gsl -[ 19%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.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/nxsdistancedatum.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsdistancedatum.cpp -[ 20%] Building C object pll/CMakeFiles/pll.dir/hash.c.o +[ 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 -[ 20%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o +[ 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 -[ 21%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o +[ 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 -[ 22%] Building C object pll/CMakeFiles/pll.dir/models.c.o +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); @@ -2325,18 +2371,49 @@ /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)); ^~~~~~~~~~~~~~~~~~ -[ 22%] 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 -In file included from /build/iqtree-1.6.9+dfsg/pll/newick.c:36: +[ 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); ^~~~~~~~~~~~~~~ -[ 23%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.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/newviewGenericSpecial.c.o -c /build/iqtree-1.6.9+dfsg/pll/newviewGenericSpecial.c -In file included from /build/iqtree-1.6.9+dfsg/pll/models.c:53: +/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); @@ -2365,102 +2442,127 @@ /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)); ^~~~~~~~~~~~~~~~~~ -[ 23%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o +[ 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); ^~~~~~~~~~~~~~~ -[ 24%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o +[ 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 -[ 25%] 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 -[ 25%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.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/nxsemptyblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxsemptyblock.cpp -[ 26%] 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 -[ 27%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o +[ 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); ^~~~~~~~~~~~~~~ -[ 27%] 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/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); ^~~~~~~~~~~~~~~ -[ 28%] 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 -[ 28%] Building C object pll/CMakeFiles/pll.dir/queue.c.o +[ 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 -[ 29%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o +[ 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 -[ 29%] 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 -[ 29%] 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 +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); ^~~~~~~~~~~~~~~ -[ 30%] 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 -[ 31%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o +[ 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); ^~~~~~~~~~~~~~~ -[ 32%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.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/searchAlgo.c.o -c /build/iqtree-1.6.9+dfsg/pll/searchAlgo.c -[ 32%] 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 -[ 33%] Building C object pll/CMakeFiles/pll.dir/stack.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 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); ^~~~~~~~~~~~~~~ -[ 33%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o +[ 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 -[ 34%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o +[ 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); ^~~~~~~~~~~~~~~ -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 -[ 35%] Building C object pll/CMakeFiles/pll.dir/trash.c.o +[ 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 -[ 36%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o +[ 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 -[ 37%] 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 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); ^~~~~~~~~~~~~~~ -[ 37%] 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 +[ 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); ^~~~~~~~~~~~~~~ -[ 37%] 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 -[ 37%] 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 -[ 38%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.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/nxstoken.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstoken.cpp -[ 38%] 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 -[ 39%] Building C object whtest/CMakeFiles/whtest.dir/whtest.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 +[ 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); @@ -2523,192 +2625,109 @@ /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) * ^~~~~~~~~~~~~~~~~~ -/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 ); - ^~~~~~~~~~~~~~~~~~~~~~~~ -[ 40%] 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 -[ 41%] 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 -[ 41%] 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 -[ 42%] 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 -[ 43%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.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/modelsblock.cpp.o -c /build/iqtree-1.6.9+dfsg/nclextra/modelsblock.cpp -[ 44%] Linking CXX static library liblbfgsb.a -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 -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' -[ 44%] 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= -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' -[ 44%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o -[ 45%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o -[ 45%] Building CXX object utils/CMakeFiles/utils.dir/optimization.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 -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 -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 -[ 46%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.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/stoprule.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/stoprule.cpp -[ 47%] 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 -[ 47%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o +[ 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 -[ 48%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o -[ 48%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.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/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 -[ 49%] Linking CXX static library libwhtest.a -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/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.serial' -[ 49%] Built target whtest -[ 49%] 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 -/usr/bin/ranlib libnclextra.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' -[ 49%] 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= -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' -[ 50%] 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 [ 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 -[ 52%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o -[ 52%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o -[ 53%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o -[ 53%] 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/greedy.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/greedy.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/circularnetwork.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/circularnetwork.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/gurobiwrapper.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/gurobiwrapper.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 -[ 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 -[ 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 -[ 55%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.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 -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 -[ 56%] 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 -[ 56%] 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 -[ 57%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.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/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.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 -[ 58%] 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 -[ 59%] Linking C static library libpll.a +[ 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' -[ 59%] Built target pll -[ 59%] 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 -/usr/bin/ranlib libncl.a make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' -[ 59%] Built target ncl +[ 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' -[ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o -[ 60%] 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/alignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/alignment.cpp +[ 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 -[ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -[ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o -[ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o +[ 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 -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/superalignment.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignment.cpp -[ 62%] 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 -[ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.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/superalignmentpairwiseplen.cpp.o -c /build/iqtree-1.6.9+dfsg/alignment/superalignmentpairwiseplen.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' -[ 64%] Built target utils +[ 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' -[ 64%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o -[ 65%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o +[ 65%] Built target pda [ 65%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o -[ 66%] 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/partitionmodelplen.cpp.o -c /build/iqtree-1.6.9+dfsg/model/partitionmodelplen.cpp -[ 66%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o -[ 66%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o -[ 67%] Building CXX object model/CMakeFiles/model.dir/modelprotein.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 -[ 68%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o +[ 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 -[ 69%] 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/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 -[ 69%] 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/modelset.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelset.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/partitionmodel.cpp.o -c /build/iqtree-1.6.9+dfsg/model/partitionmodel.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/rategammainvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rategammainvar.cpp -[ 70%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o -[ 71%] 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/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/rateheterogeneity.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterogeneity.cpp -[ 71%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.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/ratemeyerdiscrete.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerdiscrete.cpp -[ 72%] 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 -[ 73%] Linking CXX static library libpda.a -cd /build/iqtree-1.6.9+dfsg/build.serial/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake -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 -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' -[ 73%] Built target pda -[ 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/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] @@ -2723,24 +2742,6 @@ /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.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); - ^~~~~ 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] @@ -2769,14 +2770,10 @@ /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/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.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*); ^~~~~ -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 /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*) { ^~~~~ @@ -2805,6 +2802,27 @@ /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); @@ -2818,12 +2836,10 @@ /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*); ^~~~~ -[ 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 +[ 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) { ^~~~~ @@ -2836,22 +2852,63 @@ /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 -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 [ 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/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/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 -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: +[ 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); ^~~~~ @@ -2864,8 +2921,13 @@ /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*); ^~~~~ -[ 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.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, @@ -2884,8 +2946,7 @@ ^~~~~ [ 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/modelmorphology.h:11, - from /build/iqtree-1.6.9+dfsg/model/modelmorphology.cpp:8: +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); ^~~~~ @@ -2898,13 +2959,18 @@ /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: +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); ^~~~~ -/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/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] @@ -2941,31 +3007,6 @@ /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: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/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: @@ -2986,8 +3027,7 @@ /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/modelliemarkov.h:11, - from /build/iqtree-1.6.9+dfsg/model/modelliemarkov.cpp:25: +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); ^~~~~ @@ -3000,7 +3040,8 @@ /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/modelfactorymixlen.cpp:12: +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); ^~~~~ @@ -3013,13 +3054,6 @@ /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%] 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 -/usr/bin/ranlib libalignment.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' -[ 81%] Built target alignment [ 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 @@ -3041,44 +3075,27 @@ 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' -[ 84%] Building CXX object tree/CMakeFiles/tree.dir/constrainttree.cpp.o -[ 84%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o +[ 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 -[ 85%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o -[ 85%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o -[ 85%] Building CXX object tree/CMakeFiles/tree.dir/matree.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/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/iqtree.cpp.o +[ 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 -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 -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 -[ 87%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.cpp.o -[ 88%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o -[ 89%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o -[ 89%] Building CXX object tree/CMakeFiles/tree.dir/ncbitree.cpp.o -[ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o -[ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.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 -[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o +[ 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 -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 +[ 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 -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 -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 -[ 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/phylosupertree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertree.cpp -[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o -[ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o -[ 94%] 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/phylosupertreeplen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertreeplen.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/phylotree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotree.cpp -[ 94%] 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/phylotreepars.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreepars.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/phylotreemixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreemixlen.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/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: +[ 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); ^~~~~ @@ -3091,9 +3108,24 @@ /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.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: +[ 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); ^~~~~ @@ -3106,7 +3138,8 @@ /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/tree/iqtree.cpp:29: +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); ^~~~~ @@ -3119,8 +3152,13 @@ /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/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); ^~~~~ @@ -3139,10 +3177,6 @@ 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 -/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] - } - ^ [ 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 @@ -3157,12 +3191,12 @@ 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/main.cpp.o -[ 99%] Building CXX object CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o +[ 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 -[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.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 /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] @@ -3188,6 +3222,14 @@ /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); @@ -3205,18 +3247,10 @@ /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/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: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] } @@ -3232,7 +3266,7 @@ # 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 -j18 "INSTALL=install --strip-program=true" + 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 @@ -3241,28 +3275,28 @@ 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 -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.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 nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend +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 /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 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 +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/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= +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/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= +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/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/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= @@ -3272,115 +3306,87 @@ 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 sprng -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 -make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' Scanning dependencies of target lbfgsb -Scanning dependencies of target vectorclass 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 -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.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 -[ 1%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.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/pow_int.cpp.o -c /build/iqtree-1.6.9+dfsg/gsl/pow_int.cpp -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 sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build Scanning dependencies of target nclextra -[ 2%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o -[ 2%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' -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 make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build -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 -[ 3%] Building C object sprng/CMakeFiles/sprng.dir/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/lcg64.c.o -c /build/iqtree-1.6.9+dfsg/sprng/lcg64.c make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' -[ 3%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o -[ 4%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o -Scanning dependencies of target ncl -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 -[ 5%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o -[ 6%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o -[ 6%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.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/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 -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 -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 -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 -[ 6%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o -[ 7%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -[ 8%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -Scanning dependencies of target kernelsse -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 -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 -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 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' -[ 9%] Building CXX object CMakeFiles/mympi.dir/utils/TreeCollection.cpp.o 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 -[ 10%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o +[ 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 -Scanning dependencies of target whtest -[ 11%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -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 -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 -[ 12%] 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 -D__SSE3 -msse3 -o CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylokernelsse.cpp -make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' -[ 13%] Building C object whtest/CMakeFiles/whtest.dir/eigen.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/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 -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 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' -[ 13%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o -[ 14%] Building C object sprng/CMakeFiles/sprng.dir/checkid.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 -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 -[ 15%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o +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 -[ 15%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o +[ 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); ^~~~~~~~~~~~~~~ -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 -[ 16%] 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 -[ 17%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.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/nxscharactersblock.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxscharactersblock.cpp -[ 18%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o +[ 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 -[ 18%] 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 -[ 18%] 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 -cd /build/iqtree-1.6.9+dfsg/build.mpi/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 -[ 19%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o -[ 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 -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 -[ 19%] Linking C static library libsprng.a -cd /build/iqtree-1.6.9+dfsg/build.mpi/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake -/usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -/usr/bin/ranlib libvectorclass.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' -cd /build/iqtree-1.6.9+dfsg/build.mpi/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 -[ 19%] 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 -[ 19%] Built target vectorclass -/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' +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); @@ -3392,30 +3398,75 @@ /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)); ^~~~~~~~~~~~~~~~~~ -[ 20%] 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 -[ 20%] Built target sprng -[ 20%] Linking CXX static library libgsl.a +[ 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 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+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 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-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 -[ 20%] 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 +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' -[ 20%] Built target gsl -[ 21%] Building C object whtest/CMakeFiles/whtest.dir/random.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/random.c.o -c /build/iqtree-1.6.9+dfsg/whtest/random.c -[ 22%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o +[ 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 -[ 22%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.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/fastDNAparsimony.c.o -c /build/iqtree-1.6.9+dfsg/pll/fastDNAparsimony.c -[ 23%] 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 +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); @@ -3427,6 +3478,7 @@ /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 @@ -3445,8 +3497,22 @@ /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); ^~~~~~~~~~~~~~~~~~ -[ 23%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.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_sub.c.o -c /build/iqtree-1.6.9+dfsg/whtest/weisslambda_sub.c +/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); @@ -3463,41 +3529,24 @@ /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); ^~~~~~~~~~~~~~~~~~ -[ 24%] Building C object whtest/CMakeFiles/whtest.dir/whtest.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/whtest.c.o -c /build/iqtree-1.6.9+dfsg/whtest/whtest.c -[ 24%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.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/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 ); - ^~~~~~~~~~~~~~~~~~~~~~~~ -[ 25%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -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 -[ 26%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -[ 27%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.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 -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 -[ 27%] 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 -[ 28%] 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 -[ 28%] 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 -[ 29%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o +[ 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); ^~~~~~~~~~~~~~~~~~~~~~ -[ 30%] Building C object pll/CMakeFiles/pll.dir/hash.c.o +[ 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 -[ 30%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o +[ 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: @@ -3517,22 +3566,55 @@ /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 C object pll/CMakeFiles/pll.dir/newick.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/newick.c.o -c /build/iqtree-1.6.9+dfsg/pll/newick.c -[ 33%] 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 +[ 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); ^~~~~~~~~~~~~~~ -[ 33%] 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 -[ 33%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o +/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); @@ -3549,8 +3631,8 @@ /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); ^~~~~~~~~~~~~~~~~~ -[ 34%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.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/nxstoken.cpp.o -c /build/iqtree-1.6.9+dfsg/ncl/nxstoken.cpp +[ 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 @@ -3563,117 +3645,110 @@ /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)); ^~~~~~~~~~~~~~~~~~ -[ 35%] 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 -[ 36%] Linking CXX static library libwhtest.a -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/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.mpi' -[ 36%] Built target whtest -[ 37%] 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 -[ 38%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o +[ 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 -[ 39%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.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/optimizeModel.c.o -c /build/iqtree-1.6.9+dfsg/pll/optimizeModel.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); ^~~~~~~~~~~~~~~ -[ 39%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o +[ 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 -[ 40%] Building C object pll/CMakeFiles/pll.dir/queue.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/queue.c.o -c /build/iqtree-1.6.9+dfsg/pll/queue.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); ^~~~~~~~~~~~~~~ -[ 40%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o +[ 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); ^~~~~~~~~~~~~~~ -[ 41%] 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 -cd /build/iqtree-1.6.9+dfsg/build.mpi/lbfgsb && /usr/bin/cmake -E cmake_link_script CMakeFiles/lbfgsb.dir/link.txt --verbose=1 -[ 42%] Building C object pll/CMakeFiles/pll.dir/recom.c.o +[ 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 -/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' -[ 42%] 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.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= -[ 43%] 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/restartHashTable.c.o -c /build/iqtree-1.6.9+dfsg/pll/restartHashTable.c -In file included from /build/iqtree-1.6.9+dfsg/pll/recom.c:43: +[ 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); ^~~~~~~~~~~~~~~ -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' -[ 43%] 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/restartHashTable.c:47: +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); ^~~~~~~~~~~~~~~ -[ 43%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o +[ 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 -[ 44%] 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 +[ 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); ^~~~~~~~~~~~~~~ -[ 45%] 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 -[ 46%] 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 -[ 46%] Building C object pll/CMakeFiles/pll.dir/stack.c.o +[ 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 -[ 47%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.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/gzstream.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/gzstream.cpp -[ 48%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o +[ 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 -[ 49%] Building C object pll/CMakeFiles/pll.dir/trash.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/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); ^~~~~~~~~~~~~~~ +[ 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); ^~~~~~~~~~~~~~~ -[ 50%] 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 -[ 50%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o +[ 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); ^~~~~~~~~~~~~~~ -[ 51%] 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 -[ 51%] 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 +[ 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); ^~~~~~~~~~~~~~~ -[ 52%] 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 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': @@ -3732,154 +3807,83 @@ /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) * ^~~~~~~~~~~~~~~~~~ -[ 52%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.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/pllnni.cpp.o -c /build/iqtree-1.6.9+dfsg/utils/pllnni.cpp -[ 53%] 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 -[ 53%] 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 -[ 53%] Linking CXX static library libmympi.a -/usr/bin/cmake -P CMakeFiles/mympi.dir/cmake_clean_target.cmake -/usr/bin/cmake -E cmake_link_script CMakeFiles/mympi.dir/link.txt --verbose=1 -/usr/bin/ar qc libmympi.a CMakeFiles/mympi.dir/utils/TreeCollection.cpp.o CMakeFiles/mympi.dir/utils/ObjectStream.cpp.o -/usr/bin/ranlib libmympi.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' -[ 53%] Built target mympi -[ 53%] Linking CXX static library libnclextra.a -cd /build/iqtree-1.6.9+dfsg/build.mpi/nclextra && 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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/gurobiwrapper.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/gurobiwrapper.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/hashsplitset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/hashsplitset.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/pdnetwork.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pdnetwork.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/pruning.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/pruning.cpp -[ 58%] 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/splitgraph.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/splitgraph.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/split.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/split.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 -[ 62%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.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/ecopdmtreeset.cpp.o -c /build/iqtree-1.6.9+dfsg/pda/ecopdmtreeset.cpp -[ 62%] 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/pll && /usr/bin/cmake -E cmake_link_script CMakeFiles/pll.dir/link.txt --verbose=1 -/usr/bin/ar qc libpll.a CMakeFiles/pll.dir/alignment.c.o CMakeFiles/pll.dir/bipartitionList.c.o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o CMakeFiles/pll.dir/fastDNAparsimony.c.o CMakeFiles/pll.dir/hardware.c.o CMakeFiles/pll.dir/hash.c.o CMakeFiles/pll.dir/lexer.c.o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o CMakeFiles/pll.dir/models.c.o CMakeFiles/pll.dir/newick.c.o CMakeFiles/pll.dir/newviewGenericSpecial.c.o CMakeFiles/pll.dir/genericParallelization.c.o CMakeFiles/pll.dir/optimizeModel.c.o CMakeFiles/pll.dir/parsePartition.c.o CMakeFiles/pll.dir/queue.c.o CMakeFiles/pll.dir/randomTree.c.o CMakeFiles/pll.dir/recom.c.o CMakeFiles/pll.dir/restartHashTable.c.o CMakeFiles/pll.dir/searchAlgo.c.o CMakeFiles/pll.dir/ssort.c.o CMakeFiles/pll.dir/stack.c.o CMakeFiles/pll.dir/topologies.c.o CMakeFiles/pll.dir/trash.c.o CMakeFiles/pll.dir/treeIO.c.o CMakeFiles/pll.dir/utils.c.o -/usr/bin/ranlib libpll.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' -[ 62%] Built target pll -[ 62%] 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 -/usr/bin/ranlib libncl.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' -[ 62%] 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= -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 -make[4]: Entering directory '/build/iqtree-1.6.9+dfsg/build.mpi' -[ 63%] 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 -[ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o -[ 64%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.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 +[ 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 -[ 64%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -[ 66%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o -[ 66%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o +cd 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-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 -/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) { - ^~~~~ -[ 66%] 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 -/usr/bin/ranlib libpda.a -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' -[ 66%] Built target pda -[ 67%] Linking CXX static library libutils.a +[ 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' -[ 67%] Built target utils +[ 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' -[ 68%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o +[ 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 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-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 -[ 68%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o -[ 70%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o -[ 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/modelfactory.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelfactory.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/modelbin.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelbin.cpp -[ 72%] 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 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-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/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/rategammainvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rategammainvar.cpp -[ 74%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o -[ 74%] 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/rateheterogeneity.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateheterogeneity.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/rateinvar.cpp.o -c /build/iqtree-1.6.9+dfsg/model/rateinvar.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/modelprotein.cpp.o -c /build/iqtree-1.6.9+dfsg/model/modelprotein.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/ratemeyerhaeseler.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerhaeseler.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/ratemeyerdiscrete.cpp.o -c /build/iqtree-1.6.9+dfsg/model/ratemeyerdiscrete.cpp -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: +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); ^~~~~ @@ -3892,15 +3896,8 @@ /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/modelprotein.h:23, - from /build/iqtree-1.6.9+dfsg/model/modelprotein.cpp:20: +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); ^~~~~ @@ -3913,15 +3910,29 @@ /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/modelbin.h:23, - from /build/iqtree-1.6.9+dfsg/model/modelbin.cpp:20: +[ 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); ^~~~~ @@ -3934,6 +3945,19 @@ /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); @@ -3959,8 +3983,8 @@ /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); ^~~~~ -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: +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); ^~~~~ @@ -3973,7 +3997,15 @@ /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/modelmarkov.cpp:20: +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); ^~~~~ @@ -3986,36 +4018,30 @@ /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 -[ 76%] 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 [ 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 -/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*) { - ^~~~~ [ 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 -[ 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 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] @@ -4030,14 +4056,18 @@ /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 -[ 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 -[ 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 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] @@ -4052,7 +4082,8 @@ /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:8: +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); ^~~~~ @@ -4065,20 +4096,14 @@ /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: +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); ^~~~~ -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/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); ^~~~~ @@ -4091,13 +4116,20 @@ /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: +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); ^~~~~ -/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) { - ^~~~~ +[ 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] @@ -4112,9 +4144,8 @@ /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/modelpomo.cpp:1: +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); ^~~~~ @@ -4127,11 +4158,13 @@ /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*); - ^~~~~ +[ 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, @@ -4154,7 +4187,11 @@ /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: +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); ^~~~~ @@ -4167,8 +4204,12 @@ /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: +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); ^~~~~ @@ -4181,13 +4222,6 @@ /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 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 -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' -[ 83%] Built target alignment [ 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 @@ -4209,43 +4243,27 @@ 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' -[ 83%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o -[ 84%] 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/ncbitree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/ncbitree.cpp -[ 85%] Building CXX object tree/CMakeFiles/tree.dir/constrainttree.cpp.o -[ 86%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.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 -[ 88%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o -[ 88%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o +[ 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 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-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 -[ 88%] Building CXX object tree/CMakeFiles/tree.dir/mtree.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/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 -[ 89%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.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/mexttree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mexttree.cpp -[ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o -[ 90%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o -[ 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/mtree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/mtree.cpp -[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o -[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -[ 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/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 -[ 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/phylonode.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylonode.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/phylonodemixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylonodemixlen.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/phylosupertree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertree.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/phylosupertreeplen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylosupertreeplen.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/phylotree.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotree.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/phylotreemixlen.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreemixlen.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/phylotreepars.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreepars.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/phylotreesse.cpp.o -c /build/iqtree-1.6.9+dfsg/tree/phylotreesse.cpp -In file included from /build/iqtree-1.6.9+dfsg/tree/phylotreesse.cpp:35: +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); ^~~~~ @@ -4258,6 +4276,22 @@ /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] @@ -4272,7 +4306,8 @@ /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/tree/iqtree.cpp:29: +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); ^~~~~ @@ -4285,12 +4320,11 @@ /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 -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/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); ^~~~~ @@ -4303,14 +4337,14 @@ /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 -/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] - } - ^ [ 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 @@ -4326,12 +4360,12 @@ 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 -[ 99%] Building CXX object CMakeFiles/iqtree.dir/main/phylotesting.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/phylotesting.cpp.o -c /build/iqtree-1.6.9+dfsg/main/phylotesting.cpp -[ 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_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__; @@ -4356,6 +4390,10 @@ /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); @@ -4373,10 +4411,6 @@ /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: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); @@ -4408,333 +4442,282 @@ 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 ... -+ time /build/iqtree-1.6.9+dfsg/build.omp/iqtree-omp -s example.phy ++ /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: profitbricks-build16-i386 (SSE4.2, 35 GB RAM) +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: 914024 (Using SPRNG - Scalable Parallel Random Number Generator) -Time: Sat Jul 17 19:29:58 2021 -Kernel: SSE2 - 1 threads (18 CPU cores detected) +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 18 cores! +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 44 sequences with 384 columns, 355 distinct patterns -322 parsimony-informative, 22 singleton sites, 40 constant sites - Gap/Ambiguity Composition p-value - 1 FL-1-103 19.53% failed 0.00% - 2 OSH-1-103 19.53% failed 0.00% - 3 CEU-1-103 19.53% failed 0.79% - 4 TH-1-103 19.53% failed 0.10% - 5 CAa1-103 19.53% failed 0.14% - 6 CAb1-103 19.53% failed 0.00% - 7 SI-1-103 19.53% failed 0.00% - 8 LU-1-103 19.53% failed 0.01% - 9 SU-1-103 19.53% failed 0.00% - 10 RP-56-175 6.25% failed 4.72% - 11 A-14-133 6.25% failed 3.08% - 12 PR-57-176 6.25% passed 63.84% - 13 PY-61-180 6.25% passed 69.25% - 14 MGI-58-176 7.03% failed 0.05% - 15 SCR-58-177 6.25% passed 94.64% - 16 SA-60-179 6.25% passed 66.43% - 17 BR-60-179 6.25% passed 27.40% - 18 CPL-58-177 6.25% passed 55.10% - 19 LTU-59-178 6.25% passed 28.43% - 20 TSP-58-177 6.25% passed 51.74% - 21 YBN-56-175 6.25% passed 72.08% - 22 AN-56-175 6.25% passed 52.14% - 23 HI-60-179 6.25% passed 51.36% - 24 ANA-56-175 6.25% passed 88.34% - 25 ZE-48-166 7.03% failed 0.05% - 26 EAT-48-166 7.03% passed 14.40% - 27 YSA-46-164 7.03% passed 6.42% - 28 TH-52-170 7.03% passed 20.58% - 29 LA-68-186 7.03% passed 10.46% - 30 GR-854-978 2.34% failed 0.02% - 31 MO-29-154 1.56% failed 0.00% - 32 OE-36-161 1.56% passed 15.04% - 33 EME-43-168 1.56% failed 1.16% - 34 LRE-46-171 1.56% failed 0.00% - 35 P6-2-107 17.19% passed 44.21% - 36 HO-1-106 17.19% passed 14.57% - 37 SP-1-106 17.19% failed 2.41% - 38 PA-1-105 17.97% failed 0.00% - 39 NE-2-109 15.62% passed 53.11% - 40 IFE-2-109 15.62% passed 63.82% - 41 HS-9-115 16.41% failed 0.03% - 42 RVI-7-114 15.62% failed 0.12% - 43 IFE-8-115 15.62% passed 39.01% - 44 RVI-5-112 15.62% failed 0.04% -**** TOTAL 10.87% 22 sequences failed composition chi2 test (p-value<5%; df=3) +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)... 0.007 seconds -NOTE: ModelFinder requires 5 MB RAM! -ModelFinder will test 286 DNA models (sample size: 384) ... +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 11896.984 85 23963.968 24013.028 24299.773 - 2 JC+I 11644.630 86 23461.261 23511.645 23801.016 - 3 JC+G4 11342.438 86 22856.877 22907.261 23196.632 - 4 JC+I+G4 11325.668 87 22825.336 22877.066 23169.042 - 5 JC+R2 11439.955 87 23053.909 23105.639 23397.615 - 6 JC+R3 11326.857 89 22831.714 22886.204 23183.321 - 7 JC+R4 11319.675 91 22821.350 22878.692 23180.858 - 8 JC+R5 11319.407 93 22824.813 22885.103 23192.223 - 14 F81+F 11901.624 88 23979.247 24032.345 24326.904 - 15 F81+F+I 11645.933 89 23469.866 23524.356 23821.473 - 16 F81+F+G4 11338.459 89 22854.918 22909.407 23206.525 - 17 F81+F+I+G4 11321.879 90 22823.759 22879.663 23179.317 - 18 F81+F+R2 11438.114 90 23056.229 23112.133 23411.787 - 19 F81+F+R3 11324.001 92 22832.002 22890.807 23195.462 - 20 F81+F+R4 11315.788 94 22819.576 22881.375 23190.936 - 21 F81+F+R5 11315.552 96 22823.104 22887.996 23202.366 - 27 K2P 11852.831 86 23877.662 23928.046 24217.417 - 28 K2P+I 11600.380 87 23374.761 23426.490 23718.467 - 29 K2P+G4 11294.840 87 22763.680 22815.410 23107.386 - 30 K2P+I+G4 11278.473 88 22732.946 22786.045 23080.603 - 31 K2P+R2 11394.903 88 22965.806 23018.905 23313.463 - 32 K2P+R3 11280.267 90 22740.534 22796.438 23096.092 - 33 K2P+R4 11272.316 92 22728.633 22787.437 23092.092 - 34 K2P+R5 11272.072 94 22732.144 22793.943 23103.504 - 40 HKY+F 11856.643 89 23891.286 23945.776 24242.894 - 41 HKY+F+I 11599.924 90 23379.848 23435.752 23735.405 - 42 HKY+F+G4 11288.024 90 22756.047 22811.951 23111.605 - 43 HKY+F+I+G4 11271.846 91 22725.693 22783.035 23085.201 - 44 HKY+F+R2 11390.659 91 22963.318 23020.661 23322.827 - 45 HKY+F+R3 11274.687 93 22735.374 22795.663 23102.783 - 46 HKY+F+R4 11265.573 95 22721.147 22784.480 23096.458 - 47 HKY+F+R5 11265.369 97 22724.737 22791.213 23107.950 - 53 TNe 11851.431 87 23876.863 23928.592 24220.568 - 54 TNe+I 11593.085 88 23362.170 23415.268 23709.826 - 55 TNe+G4 11293.233 88 22762.465 22815.563 23110.122 - 56 TNe+I+G4 11276.082 89 22730.164 22784.654 23081.772 - 57 TNe+R2 11393.049 89 22964.099 23018.589 23315.706 - 58 TNe+R3 11276.241 91 22734.483 22791.825 23093.991 - 59 TNe+R4 11269.225 93 22724.450 22784.740 23091.860 - 60 TNe+R5 11268.885 95 22727.770 22791.103 23103.081 - 66 TN+F 11855.099 90 23890.197 23946.102 24245.755 - 67 TN+F+I 11591.683 91 23365.366 23422.708 23724.874 - 68 TN+F+G4 11285.690 91 22753.381 22810.723 23112.889 - 69 TN+F+I+G4 11268.590 92 22721.181 22779.985 23084.640 - 70 TN+F+R2 11388.150 92 22960.300 23019.104 23323.759 - 71 TN+F+R3 11269.645 94 22727.289 22789.088 23098.650 - 72 TN+F+R4 11261.421 96 22714.841 22779.733 23094.103 - 73 TN+F+R5 11261.191 98 22718.382 22786.467 23105.545 - 79 K3P 11838.014 87 23850.027 23901.757 24193.733 - 80 K3P+I 11584.805 88 23345.610 23398.708 23693.266 - 81 K3P+G4 11282.901 88 22741.802 22794.900 23089.458 - 82 K3P+I+G4 11265.891 89 22709.781 22764.271 23061.389 - 83 K3P+R2 11379.594 89 22937.187 22991.677 23288.795 - 84 K3P+R3 11267.387 91 22716.775 22774.117 23076.283 - 85 K3P+R4 11259.832 93 22705.664 22765.953 23073.074 - 86 K3P+R5 11259.634 95 22709.268 22772.601 23084.579 - 92 K3Pu+F 11841.939 90 23863.879 23919.783 24219.437 - 93 K3Pu+F+I 11584.510 91 23351.021 23408.363 23710.529 - 94 K3Pu+F+G4 11276.846 91 22735.692 22793.034 23095.200 - 95 K3Pu+F+I+G4 11259.978 92 22703.957 22762.761 23067.416 - 96 K3Pu+F+R2 11375.754 92 22935.507 22994.311 23298.966 - 97 K3Pu+F+R3 11262.527 94 22713.055 22774.854 23084.415 - 98 K3Pu+F+R4 11253.789 96 22699.578 22764.470 23078.839 - 99 K3Pu+F+R5 11253.627 98 22703.254 22771.338 23090.417 -105 TPM2+F 11856.505 90 23893.009 23948.913 24248.567 -106 TPM2+F+I 11599.678 91 23381.356 23438.699 23740.865 -107 TPM2+F+G4 11287.224 91 22756.449 22813.791 23115.957 -108 TPM2+F+I+G4 11271.239 92 22726.477 22785.282 23089.937 -109 TPM2+F+R2 11390.637 92 22965.274 23024.078 23328.733 -110 TPM2+F+R3 11274.140 94 22736.281 22798.080 23107.641 -111 TPM2+F+R4 11265.206 96 22722.411 22787.303 23101.673 -112 TPM2+F+R5 11264.925 98 22725.850 22793.935 23113.013 -118 TPM2u+F 11856.504 90 23893.009 23948.913 24248.566 -119 TPM2u+F+I 11599.678 91 23381.356 23438.698 23740.864 -120 TPM2u+F+G4 11287.223 91 22756.447 22813.789 23115.955 -121 TPM2u+F+I+G4 11271.237 92 22726.474 22785.279 23089.934 -122 TPM2u+F+R2 11390.639 92 22965.278 23024.082 23328.737 -123 TPM2u+F+R3 11274.143 94 22736.287 22798.086 23107.647 -124 TPM2u+F+R4 11265.206 96 22722.412 22787.304 23101.674 -125 TPM2u+F+R5 11264.921 98 22725.842 22793.926 23113.005 -131 TPM3+F 11823.830 90 23827.661 23883.565 24183.218 -132 TPM3+F+I 11587.374 91 23356.749 23414.091 23716.257 -133 TPM3+F+G4 11284.279 91 22750.558 22807.900 23110.066 -134 TPM3+F+I+G4 11268.831 92 22721.662 22780.466 23085.121 -135 TPM3+F+R2 11385.159 92 22954.317 23013.122 23317.777 -136 TPM3+F+R3 11270.001 94 22728.003 22789.802 23099.363 -137 TPM3+F+R4 11262.521 96 22717.042 22781.934 23096.304 -138 TPM3+F+R5 11262.198 98 22720.397 22788.481 23107.560 -144 TPM3u+F 11823.830 90 23827.661 23883.565 24183.219 -145 TPM3u+F+I 11587.374 91 23356.749 23414.091 23716.257 -146 TPM3u+F+G4 11284.279 91 22750.558 22807.901 23110.067 -147 TPM3u+F+I+G4 11268.831 92 22721.662 22780.466 23085.121 -148 TPM3u+F+R2 11385.147 92 22954.293 23013.097 23317.752 -149 TPM3u+F+R3 11270.002 94 22728.003 22789.803 23099.364 -150 TPM3u+F+R4 11262.518 96 22717.035 22781.927 23096.297 -151 TPM3u+F+R5 11262.187 98 22720.374 22788.459 23107.537 -157 TIMe 11836.630 88 23849.259 23902.357 24196.916 -158 TIMe+I 11577.554 89 23333.109 23387.599 23684.716 -159 TIMe+G4 11281.354 89 22740.708 22795.198 23092.316 -160 TIMe+I+G4 11263.575 90 22707.149 22763.054 23062.707 -161 TIMe+R2 11377.756 90 22935.513 22991.417 23291.070 -162 TIMe+R3 11263.307 92 22710.614 22769.418 23074.073 -163 TIMe+R4 11256.805 94 22701.609 22763.409 23072.970 -164 TIMe+R5 11256.495 96 22704.991 22769.883 23084.252 -170 TIM+F 11840.415 91 23862.829 23920.171 24222.338 -171 TIM+F+I 11576.325 92 23336.650 23395.454 23700.109 -172 TIM+F+G4 11274.604 92 22733.207 22792.011 23096.666 -173 TIM+F+I+G4 11256.821 93 22699.642 22759.932 23067.052 -174 TIM+F+R2 11373.234 93 22932.468 22992.758 23299.878 -175 TIM+F+R3 11257.436 95 22704.871 22768.204 23080.182 -176 TIM+F+R4 11249.739 97 22693.479 22759.954 23076.691 -177 TIM+F+R5 11249.539 99 22697.078 22766.796 23088.192 -183 TIM2e 11851.235 88 23878.469 23931.567 24226.126 -184 TIM2e+I 11592.773 89 23363.545 23418.035 23715.152 -185 TIM2e+G4 11292.695 89 22763.390 22817.880 23114.997 -186 TIM2e+I+G4 11275.720 90 22731.441 22787.345 23086.999 -187 TIM2e+R2 11393.048 90 22966.095 23022.000 23321.653 -188 TIM2e+R3 11275.932 92 22735.864 22794.669 23099.324 -189 TIM2e+R4 11268.920 94 22725.840 22787.640 23097.201 -190 TIM2e+R5 11268.587 96 22729.173 22794.065 23108.435 -196 TIM2+F 11854.963 91 23891.926 23949.268 24251.434 -197 TIM2+F+I 11591.448 92 23366.896 23425.700 23730.355 -198 TIM2+F+G4 11284.913 92 22753.826 22812.630 23117.285 -199 TIM2+F+I+G4 11268.028 93 22722.056 22782.346 23089.466 -200 TIM2+F+R2 11388.140 93 22962.280 23022.570 23329.690 -201 TIM2+F+R3 11269.152 95 22728.304 22791.637 23103.615 -202 TIM2+F+R4 11261.039 97 22716.079 22782.554 23099.291 -203 TIM2+F+R5 11260.775 99 22719.550 22789.268 23110.663 -209 TIM3e 11809.788 88 23795.576 23848.674 24143.232 -210 TIM3e+I 11574.779 89 23327.558 23382.047 23679.165 -211 TIM3e+G4 11285.406 89 22748.812 22803.302 23100.419 -212 TIM3e+I+G4 11269.383 90 22718.766 22774.670 23074.323 -213 TIM3e+R2 11382.648 90 22945.296 23001.201 23300.854 -214 TIM3e+R3 11267.172 92 22718.343 22777.147 23081.802 -215 TIM3e+R4 11261.906 94 22711.813 22773.612 23083.173 -222 TIM3+F 11822.018 91 23826.036 23883.378 24185.544 -223 TIM3+F+I 11579.152 92 23342.303 23401.107 23705.762 -224 TIM3+F+G4 11281.829 92 22747.658 22806.462 23111.117 -225 TIM3+F+I+G4 11265.491 93 22716.982 22777.272 23084.392 -226 TIM3+F+R2 11382.676 93 22951.352 23011.642 23318.762 -227 TIM3+F+R3 11264.919 95 22719.838 22783.171 23095.149 -228 TIM3+F+R4 11257.994 97 22709.989 22776.464 23093.201 -229 TIM3+F+R5 11257.776 99 22713.552 22783.270 23104.666 -235 TVMe 11795.771 89 23769.542 23824.032 24121.149 -236 TVMe+I 11565.792 90 23311.584 23367.488 23667.142 -237 TVMe+G4 11272.368 90 22724.735 22780.640 23080.293 -238 TVMe+I+G4 11256.893 91 22695.786 22753.128 23055.294 -239 TVMe+R2 11368.421 91 22918.841 22976.184 23278.350 -240 TVMe+R3 11255.753 93 22697.506 22757.796 23064.916 -241 TVMe+R4 11250.980 95 22691.960 22755.294 23067.271 -248 TVM+F 11808.304 92 23800.608 23859.412 24164.067 -249 TVM+F+I 11571.332 93 23328.665 23388.954 23696.074 -250 TVM+F+G4 11269.965 93 22725.929 22786.219 23093.339 -251 TVM+F+I+G4 11254.228 94 22696.456 22758.255 23067.816 -252 TVM+F+R2 11369.197 94 22926.393 22988.193 23297.754 -253 TVM+F+R3 11254.922 96 22701.845 22766.737 23081.106 -254 TVM+F+R4 11248.531 98 22693.063 22761.147 23080.226 -255 TVM+F+R5 11248.083 100 22696.166 22767.544 23091.230 -261 SYM 11794.080 90 23768.159 23824.064 24123.717 -262 SYM+I 11558.515 91 23299.031 23356.373 23658.539 -263 SYM+G4 11270.604 91 22723.209 22780.551 23082.717 -264 SYM+I+G4 11254.446 92 22692.892 22751.696 23056.351 -265 SYM+R2 11366.554 92 22917.107 22975.911 23280.566 -266 SYM+R3 11251.608 94 22691.217 22753.016 23062.577 -267 SYM+R4 11247.493 96 22686.986 22751.878 23066.248 -274 GTR+F 11806.479 93 23798.958 23859.247 24166.367 -275 GTR+F+I 11563.107 94 23314.214 23376.014 23685.575 -276 GTR+F+G4 11267.626 94 22723.252 22785.051 23094.612 -277 GTR+F+I+G4 11251.071 95 22692.141 22755.475 23067.452 -278 GTR+F+R2 11366.857 95 22923.715 22987.048 23299.026 -279 GTR+F+R3 11249.888 97 22693.777 22760.252 23076.989 -280 GTR+F+R4 11244.241 99 22686.483 22756.201 23077.596 -Akaike Information Criterion: GTR+F+R4 -Corrected Akaike Information Criterion: SYM+I+G4 -Bayesian Information Criterion: TVMe+I+G4 -Best-fit model: TVMe+I+G4 chosen according to 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: 14.181 seconds (0h:0m:14s) -Wall-clock time for ModelFinder: 14.393 seconds (0h:0m:14s) +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, 0.965 / LogL: -11272.369 -Init pinv, alpha: 0.012, 1.000 / Estimate: 0.085, 1.590 / LogL: -11256.894 -Init pinv, alpha: 0.023, 1.000 / Estimate: 0.084, 1.586 / LogL: -11256.896 -Init pinv, alpha: 0.035, 1.000 / Estimate: 0.084, 1.584 / LogL: -11256.899 -Init pinv, alpha: 0.046, 1.000 / Estimate: 0.085, 1.589 / LogL: -11256.893 -Init pinv, alpha: 0.058, 1.000 / Estimate: 0.084, 1.585 / LogL: -11256.897 -Init pinv, alpha: 0.069, 1.000 / Estimate: 0.085, 1.589 / LogL: -11256.893 -Init pinv, alpha: 0.081, 1.000 / Estimate: 0.085, 1.592 / LogL: -11256.892 -Init pinv, alpha: 0.093, 1.000 / Estimate: 0.085, 1.596 / LogL: -11256.892 -Init pinv, alpha: 0.104, 1.000 / Estimate: 0.085, 1.596 / LogL: -11256.892 -Optimal pinv,alpha: 0.085, 1.596 / LogL: -11256.892 +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 1.467 sec -Computing ML distances based on estimated model parameters... 0.015 sec +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: -11256.397 +Log-likelihood of BIONJ tree: -21157.760 -------------------------------------------------------------------- | INITIALIZING CANDIDATE TREE SET | -------------------------------------------------------------------- -Generating 98 parsimony trees... 0.599 second -Computing log-likelihood of 98 initial trees ... 1.323 seconds -Current best score: -11236.546 +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: -11226.700 +BETTER TREE FOUND at iteration 1: -21157.727 Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 2: -11225.742 -Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 4: -11222.788 -Iteration 10 / LogL: -11227.188 / Time: 0h:0m:4s -Iteration 20 / LogL: -11225.928 / Time: 0h:0m:5s -Finish initializing candidate tree set (12) -Current best tree score: -11222.788 / CPU time: 4.176 +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: -11228.365 / Time: 0h:0m:7s (0h:0m:18s left) -Iteration 40 / LogL: -11234.823 / Time: 0h:0m:9s (0h:0m:14s left) -UPDATE BEST LOG-LIKELIHOOD: -11222.779 -Iteration 50 / LogL: -11223.129 / Time: 0h:0m:10s (0h:0m:12s left) -UPDATE BEST LOG-LIKELIHOOD: -11222.776 -Iteration 60 / LogL: -11231.539 / Time: 0h:0m:12s (0h:0m:9s left) -UPDATE BEST LOG-LIKELIHOOD: -11222.774 -UPDATE BEST LOG-LIKELIHOOD: -11222.773 -Iteration 70 / LogL: -11223.674 / Time: 0h:0m:14s (0h:0m:7s left) -Iteration 80 / LogL: -11222.816 / Time: 0h:0m:16s (0h:0m:4s left) -Iteration 90 / LogL: -11223.030 / Time: 0h:0m:17s (0h:0m:2s left) -Iteration 100 / LogL: -11223.035 / Time: 0h:0m:19s (0h:0m:0s left) -TREE SEARCH COMPLETED AFTER 105 ITERATIONS / Time: 0h:0m:20s +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: -11222.773 -Optimal log-likelihood: -11222.772 -Rate parameters: A-C: 1.51935 A-G: 2.61597 A-T: 1.67715 C-G: 1.98620 C-T: 2.61597 G-T: 1.00000 -Base frequencies: A: 0.250 C: 0.250 G: 0.250 T: 0.250 -Proportion of invariable sites: 0.083 -Gamma shape alpha: 1.529 -Parameters optimization took 1 rounds (0.030 sec) -BEST SCORE FOUND : -11222.772 -Total tree length: 12.603 +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: 105 -CPU time used for tree search: 18.215 sec (0h:0m:18s) -Wall-clock time used for tree search: 18.656 sec (0h:0m:18s) -Total CPU time used: 19.772 sec (0h:0m:19s) -Total wall-clock time used: 20.225 sec (0h:0m:20s) +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 @@ -4742,331 +4725,285 @@ Likelihood distances: example.phy.mldist Screen log file: example.phy.log -Date and Time: Sat Jul 17 19:30:33 2021 -33.96user 0.66system 0:34.63elapsed 99%CPU (0avgtext+0avgdata 11788maxresident)k -0inputs+272outputs (0major+67196minor)pagefaults 0swaps -+ time /build/iqtree-1.6.9+dfsg/build.omp/iqtree-omp -s example.phy -omp 2 -redo +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: profitbricks-build16-i386 (SSE4.2, 35 GB RAM) +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: 549956 (Using SPRNG - Scalable Parallel Random Number Generator) -Time: Sat Jul 17 19:30:33 2021 -Kernel: SSE2 - 2 threads (18 CPU cores detected) +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 44 sequences with 384 columns, 355 distinct patterns -322 parsimony-informative, 22 singleton sites, 40 constant sites - Gap/Ambiguity Composition p-value - 1 FL-1-103 19.53% failed 0.00% - 2 OSH-1-103 19.53% failed 0.00% - 3 CEU-1-103 19.53% failed 0.79% - 4 TH-1-103 19.53% failed 0.10% - 5 CAa1-103 19.53% failed 0.14% - 6 CAb1-103 19.53% failed 0.00% - 7 SI-1-103 19.53% failed 0.00% - 8 LU-1-103 19.53% failed 0.01% - 9 SU-1-103 19.53% failed 0.00% - 10 RP-56-175 6.25% failed 4.72% - 11 A-14-133 6.25% failed 3.08% - 12 PR-57-176 6.25% passed 63.84% - 13 PY-61-180 6.25% passed 69.25% - 14 MGI-58-176 7.03% failed 0.05% - 15 SCR-58-177 6.25% passed 94.64% - 16 SA-60-179 6.25% passed 66.43% - 17 BR-60-179 6.25% passed 27.40% - 18 CPL-58-177 6.25% passed 55.10% - 19 LTU-59-178 6.25% passed 28.43% - 20 TSP-58-177 6.25% passed 51.74% - 21 YBN-56-175 6.25% passed 72.08% - 22 AN-56-175 6.25% passed 52.14% - 23 HI-60-179 6.25% passed 51.36% - 24 ANA-56-175 6.25% passed 88.34% - 25 ZE-48-166 7.03% failed 0.05% - 26 EAT-48-166 7.03% passed 14.40% - 27 YSA-46-164 7.03% passed 6.42% - 28 TH-52-170 7.03% passed 20.58% - 29 LA-68-186 7.03% passed 10.46% - 30 GR-854-978 2.34% failed 0.02% - 31 MO-29-154 1.56% failed 0.00% - 32 OE-36-161 1.56% passed 15.04% - 33 EME-43-168 1.56% failed 1.16% - 34 LRE-46-171 1.56% failed 0.00% - 35 P6-2-107 17.19% passed 44.21% - 36 HO-1-106 17.19% passed 14.57% - 37 SP-1-106 17.19% failed 2.41% - 38 PA-1-105 17.97% failed 0.00% - 39 NE-2-109 15.62% passed 53.11% - 40 IFE-2-109 15.62% passed 63.82% - 41 HS-9-115 16.41% failed 0.03% - 42 RVI-7-114 15.62% failed 0.12% - 43 IFE-8-115 15.62% passed 39.01% - 44 RVI-5-112 15.62% failed 0.04% -**** TOTAL 10.87% 22 sequences failed composition chi2 test (p-value<5%; df=3) +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 5 MB RAM! -ModelFinder will test 286 DNA models (sample size: 384) ... +NOTE: ModelFinder requires 6 MB RAM! +ModelFinder will test 286 DNA models (sample size: 1998) ... No. Model -LnL df AIC AICc BIC - 1 JC 11896.984 85 23963.968 24013.028 24299.773 - 2 JC+I 11644.630 86 23461.261 23511.645 23801.016 - 3 JC+G4 11342.438 86 22856.877 22907.261 23196.632 - 4 JC+I+G4 11325.668 87 22825.336 22877.066 23169.042 - 5 JC+R2 11439.955 87 23053.909 23105.639 23397.615 - 6 JC+R3 11326.857 89 22831.714 22886.204 23183.321 - 7 JC+R4 11319.675 91 22821.350 22878.692 23180.858 - 8 JC+R5 11319.407 93 22824.813 22885.103 23192.223 - 14 F81+F 11901.624 88 23979.247 24032.346 24326.904 - 15 F81+F+I 11645.933 89 23469.866 23524.356 23821.473 - 16 F81+F+G4 11338.459 89 22854.918 22909.407 23206.525 - 17 F81+F+I+G4 11321.879 90 22823.759 22879.663 23179.317 - 18 F81+F+R2 11438.114 90 23056.229 23112.133 23411.787 - 19 F81+F+R3 11324.001 92 22832.002 22890.807 23195.462 - 20 F81+F+R4 11315.788 94 22819.576 22881.375 23190.936 - 21 F81+F+R5 11315.552 96 22823.104 22887.996 23202.366 - 27 K2P 11852.831 86 23877.662 23928.046 24217.417 - 28 K2P+I 11600.380 87 23374.761 23426.490 23718.467 - 29 K2P+G4 11294.840 87 22763.680 22815.410 23107.386 - 30 K2P+I+G4 11278.473 88 22732.946 22786.045 23080.603 - 31 K2P+R2 11394.903 88 22965.806 23018.905 23313.463 - 32 K2P+R3 11280.267 90 22740.534 22796.438 23096.092 - 33 K2P+R4 11272.316 92 22728.633 22787.437 23092.092 - 34 K2P+R5 11272.072 94 22732.144 22793.943 23103.504 - 40 HKY+F 11856.643 89 23891.286 23945.776 24242.894 - 41 HKY+F+I 11599.924 90 23379.848 23435.752 23735.405 - 42 HKY+F+G4 11288.024 90 22756.047 22811.951 23111.605 - 43 HKY+F+I+G4 11271.846 91 22725.693 22783.035 23085.201 - 44 HKY+F+R2 11390.659 91 22963.319 23020.661 23322.827 - 45 HKY+F+R3 11274.687 93 22735.374 22795.663 23102.783 - 46 HKY+F+R4 11265.573 95 22721.147 22784.480 23096.458 - 47 HKY+F+R5 11265.369 97 22724.737 22791.213 23107.950 - 53 TNe 11851.431 87 23876.863 23928.592 24220.568 - 54 TNe+I 11593.085 88 23362.170 23415.268 23709.826 - 55 TNe+G4 11293.233 88 22762.465 22815.563 23110.122 - 56 TNe+I+G4 11276.082 89 22730.164 22784.654 23081.772 - 57 TNe+R2 11393.049 89 22964.099 23018.589 23315.706 - 58 TNe+R3 11276.242 91 22734.483 22791.825 23093.991 - 59 TNe+R4 11269.225 93 22724.450 22784.740 23091.860 - 60 TNe+R5 11268.885 95 22727.770 22791.103 23103.081 - 66 TN+F 11855.099 90 23890.197 23946.102 24245.755 - 67 TN+F+I 11591.683 91 23365.366 23422.708 23724.874 - 68 TN+F+G4 11285.690 91 22753.381 22810.723 23112.889 - 69 TN+F+I+G4 11268.590 92 22721.181 22779.985 23084.640 - 70 TN+F+R2 11388.150 92 22960.300 23019.104 23323.759 - 71 TN+F+R3 11269.645 94 22727.289 22789.088 23098.650 - 72 TN+F+R4 11261.421 96 22714.841 22779.733 23094.103 - 73 TN+F+R5 11261.191 98 22718.382 22786.467 23105.545 - 79 K3P 11838.014 87 23850.027 23901.757 24193.733 - 80 K3P+I 11584.805 88 23345.610 23398.708 23693.266 - 81 K3P+G4 11282.901 88 22741.802 22794.900 23089.458 - 82 K3P+I+G4 11265.891 89 22709.781 22764.271 23061.389 - 83 K3P+R2 11379.594 89 22937.187 22991.677 23288.795 - 84 K3P+R3 11267.387 91 22716.775 22774.117 23076.283 - 85 K3P+R4 11259.832 93 22705.664 22765.953 23073.074 - 86 K3P+R5 11259.634 95 22709.268 22772.601 23084.579 - 92 K3Pu+F 11841.939 90 23863.879 23919.783 24219.437 - 93 K3Pu+F+I 11584.510 91 23351.021 23408.363 23710.529 - 94 K3Pu+F+G4 11276.846 91 22735.692 22793.034 23095.200 - 95 K3Pu+F+I+G4 11259.978 92 22703.957 22762.761 23067.416 - 96 K3Pu+F+R2 11375.754 92 22935.507 22994.311 23298.966 - 97 K3Pu+F+R3 11262.527 94 22713.055 22774.854 23084.415 - 98 K3Pu+F+R4 11253.789 96 22699.578 22764.470 23078.839 - 99 K3Pu+F+R5 11253.627 98 22703.254 22771.338 23090.417 -105 TPM2+F 11856.504 90 23893.009 23948.913 24248.567 -106 TPM2+F+I 11599.678 91 23381.356 23438.699 23740.865 -107 TPM2+F+G4 11287.224 91 22756.449 22813.791 23115.957 -108 TPM2+F+I+G4 11271.239 92 22726.477 22785.282 23089.937 -109 TPM2+F+R2 11390.637 92 22965.274 23024.078 23328.733 -110 TPM2+F+R3 11274.140 94 22736.281 22798.080 23107.641 -111 TPM2+F+R4 11265.206 96 22722.411 22787.303 23101.673 -112 TPM2+F+R5 11264.925 98 22725.850 22793.935 23113.013 -118 TPM2u+F 11856.504 90 23893.009 23948.913 24248.566 -119 TPM2u+F+I 11599.678 91 23381.356 23438.698 23740.864 -120 TPM2u+F+G4 11287.223 91 22756.447 22813.789 23115.955 -121 TPM2u+F+I+G4 11271.237 92 22726.474 22785.279 23089.934 -122 TPM2u+F+R2 11390.639 92 22965.278 23024.082 23328.737 -123 TPM2u+F+R3 11274.143 94 22736.287 22798.086 23107.647 -124 TPM2u+F+R4 11265.206 96 22722.412 22787.304 23101.674 -125 TPM2u+F+R5 11264.921 98 22725.842 22793.926 23113.005 -131 TPM3+F 11823.830 90 23827.661 23883.565 24183.218 -132 TPM3+F+I 11587.374 91 23356.749 23414.091 23716.257 -133 TPM3+F+G4 11284.279 91 22750.558 22807.900 23110.066 -134 TPM3+F+I+G4 11268.831 92 22721.662 22780.466 23085.121 -135 TPM3+F+R2 11385.159 92 22954.317 23013.122 23317.777 -136 TPM3+F+R3 11270.001 94 22728.003 22789.802 23099.363 -137 TPM3+F+R4 11262.521 96 22717.042 22781.934 23096.304 -138 TPM3+F+R5 11262.198 98 22720.397 22788.481 23107.560 -144 TPM3u+F 11823.830 90 23827.661 23883.565 24183.219 -145 TPM3u+F+I 11587.374 91 23356.749 23414.091 23716.257 -146 TPM3u+F+G4 11284.279 91 22750.558 22807.901 23110.067 -147 TPM3u+F+I+G4 11268.831 92 22721.662 22780.466 23085.121 -148 TPM3u+F+R2 11385.147 92 22954.293 23013.097 23317.752 -149 TPM3u+F+R3 11270.002 94 22728.003 22789.803 23099.364 -150 TPM3u+F+R4 11262.518 96 22717.035 22781.927 23096.297 -151 TPM3u+F+R5 11262.187 98 22720.375 22788.459 23107.537 -157 TIMe 11836.630 88 23849.259 23902.357 24196.916 -158 TIMe+I 11577.554 89 23333.109 23387.599 23684.716 -159 TIMe+G4 11281.354 89 22740.708 22795.198 23092.316 -160 TIMe+I+G4 11263.575 90 22707.149 22763.054 23062.707 -161 TIMe+R2 11377.756 90 22935.513 22991.417 23291.070 -162 TIMe+R3 11263.307 92 22710.613 22769.418 23074.073 -163 TIMe+R4 11256.805 94 22701.609 22763.409 23072.970 -164 TIMe+R5 11256.495 96 22704.991 22769.883 23084.252 -170 TIM+F 11840.415 91 23862.829 23920.172 24222.338 -171 TIM+F+I 11576.325 92 23336.650 23395.454 23700.109 -172 TIM+F+G4 11274.604 92 22733.207 22792.011 23096.666 -173 TIM+F+I+G4 11256.821 93 22699.642 22759.932 23067.052 -174 TIM+F+R2 11373.234 93 22932.468 22992.758 23299.878 -175 TIM+F+R3 11257.436 95 22704.871 22768.204 23080.182 -176 TIM+F+R4 11249.739 97 22693.479 22759.954 23076.691 -177 TIM+F+R5 11249.539 99 22697.078 22766.796 23088.192 -183 TIM2e 11851.235 88 23878.469 23931.567 24226.126 -184 TIM2e+I 11592.773 89 23363.545 23418.035 23715.152 -185 TIM2e+G4 11292.695 89 22763.390 22817.880 23114.997 -186 TIM2e+I+G4 11275.720 90 22731.441 22787.345 23086.999 -187 TIM2e+R2 11393.048 90 22966.095 23022.000 23321.653 -188 TIM2e+R3 11275.932 92 22735.864 22794.669 23099.324 -189 TIM2e+R4 11268.920 94 22725.840 22787.640 23097.201 -190 TIM2e+R5 11268.587 96 22729.173 22794.065 23108.435 -196 TIM2+F 11854.963 91 23891.926 23949.268 24251.434 -197 TIM2+F+I 11591.448 92 23366.896 23425.700 23730.355 -198 TIM2+F+G4 11284.913 92 22753.826 22812.630 23117.285 -199 TIM2+F+I+G4 11268.028 93 22722.056 22782.346 23089.466 -200 TIM2+F+R2 11388.140 93 22962.280 23022.570 23329.690 -201 TIM2+F+R3 11269.152 95 22728.304 22791.637 23103.615 -202 TIM2+F+R4 11261.039 97 22716.079 22782.554 23099.291 -203 TIM2+F+R5 11260.775 99 22719.550 22789.268 23110.663 -209 TIM3e 11809.788 88 23795.576 23848.674 24143.232 -210 TIM3e+I 11574.779 89 23327.558 23382.047 23679.165 -211 TIM3e+G4 11285.406 89 22748.812 22803.302 23100.419 -212 TIM3e+I+G4 11269.383 90 22718.766 22774.670 23074.323 -213 TIM3e+R2 11382.648 90 22945.296 23001.201 23300.854 -214 TIM3e+R3 11267.172 92 22718.343 22777.147 23081.802 -215 TIM3e+R4 11261.906 94 22711.813 22773.612 23083.173 -222 TIM3+F 11822.018 91 23826.036 23883.378 24185.544 -223 TIM3+F+I 11579.152 92 23342.303 23401.107 23705.762 -224 TIM3+F+G4 11281.829 92 22747.658 22806.462 23111.117 -225 TIM3+F+I+G4 11265.491 93 22716.982 22777.272 23084.392 -226 TIM3+F+R2 11382.676 93 22951.352 23011.642 23318.762 -227 TIM3+F+R3 11264.919 95 22719.838 22783.171 23095.149 -228 TIM3+F+R4 11257.994 97 22709.989 22776.464 23093.201 -229 TIM3+F+R5 11257.776 99 22713.552 22783.270 23104.666 -235 TVMe 11795.771 89 23769.542 23824.032 24121.149 -236 TVMe+I 11565.792 90 23311.584 23367.488 23667.142 -237 TVMe+G4 11272.368 90 22724.735 22780.639 23080.293 -238 TVMe+I+G4 11256.893 91 22695.786 22753.128 23055.294 -239 TVMe+R2 11368.421 91 22918.841 22976.184 23278.350 -240 TVMe+R3 11255.753 93 22697.506 22757.796 23064.916 -241 TVMe+R4 11250.980 95 22691.960 22755.294 23067.271 -248 TVM+F 11808.304 92 23800.608 23859.412 24164.067 -249 TVM+F+I 11571.332 93 23328.665 23388.954 23696.074 -250 TVM+F+G4 11269.965 93 22725.929 22786.219 23093.339 -251 TVM+F+I+G4 11254.228 94 22696.456 22758.255 23067.816 -252 TVM+F+R2 11369.197 94 22926.393 22988.193 23297.754 -253 TVM+F+R3 11254.922 96 22701.845 22766.737 23081.106 -254 TVM+F+R4 11248.531 98 22693.063 22761.147 23080.226 -255 TVM+F+R5 11248.083 100 22696.166 22767.544 23091.230 -261 SYM 11794.080 90 23768.160 23824.064 24123.717 -262 SYM+I 11558.515 91 23299.031 23356.373 23658.539 -263 SYM+G4 11270.604 91 22723.209 22780.551 23082.717 -264 SYM+I+G4 11254.446 92 22692.892 22751.696 23056.351 -265 SYM+R2 11366.554 92 22917.107 22975.911 23280.566 -266 SYM+R3 11251.608 94 22691.217 22753.016 23062.577 -267 SYM+R4 11247.493 96 22686.986 22751.878 23066.248 -274 GTR+F 11806.479 93 23798.958 23859.247 24166.367 -275 GTR+F+I 11563.107 94 23314.214 23376.014 23685.575 -276 GTR+F+G4 11267.626 94 22723.252 22785.051 23094.612 -277 GTR+F+I+G4 11251.071 95 22692.141 22755.475 23067.452 -278 GTR+F+R2 11366.857 95 22923.714 22987.048 23299.026 -279 GTR+F+R3 11249.888 97 22693.777 22760.252 23076.989 -280 GTR+F+R4 11244.241 99 22686.483 22756.201 23077.596 -Akaike Information Criterion: GTR+F+R4 -Corrected Akaike Information Criterion: SYM+I+G4 -Bayesian Information Criterion: TVMe+I+G4 -Best-fit model: TVMe+I+G4 chosen according to 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: 0.047 seconds (0h:0m:0s) -Wall-clock time for ModelFinder: 0.051 seconds (0h:0m:0s) +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, 0.965 / LogL: -11272.369 -Init pinv, alpha: 0.012, 1.000 / Estimate: 0.085, 1.590 / LogL: -11256.894 -Init pinv, alpha: 0.023, 1.000 / Estimate: 0.084, 1.586 / LogL: -11256.896 -Init pinv, alpha: 0.035, 1.000 / Estimate: 0.084, 1.584 / LogL: -11256.899 -Init pinv, alpha: 0.046, 1.000 / Estimate: 0.085, 1.589 / LogL: -11256.893 -Init pinv, alpha: 0.058, 1.000 / Estimate: 0.084, 1.585 / LogL: -11256.897 -Init pinv, alpha: 0.069, 1.000 / Estimate: 0.085, 1.589 / LogL: -11256.893 -Init pinv, alpha: 0.081, 1.000 / Estimate: 0.085, 1.592 / LogL: -11256.892 -Init pinv, alpha: 0.093, 1.000 / Estimate: 0.085, 1.596 / LogL: -11256.892 -Init pinv, alpha: 0.104, 1.000 / Estimate: 0.085, 1.596 / LogL: -11256.892 -Optimal pinv,alpha: 0.085, 1.596 / LogL: -11256.892 +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 1.286 sec -Computing ML distances based on estimated model parameters... 0.019 sec +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: -11256.397 +Log-likelihood of BIONJ tree: -21157.760 -------------------------------------------------------------------- | INITIALIZING CANDIDATE TREE SET | -------------------------------------------------------------------- -Generating 98 parsimony trees... 0.603 second -Computing log-likelihood of 98 initial trees ... 1.069 seconds -Current best score: -11241.347 +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: -11231.907 +BETTER TREE FOUND at iteration 1: -21157.727 Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 2: -11224.925 -Iteration 10 / LogL: -11226.767 / Time: 0h:0m:3s -Iteration 20 / LogL: -11225.612 / Time: 0h:0m:4s -Finish initializing candidate tree set (15) -Current best tree score: -11224.925 / CPU time: 3.286 +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: -11227.309 / Time: 0h:0m:5s (0h:0m:14s left) -Iteration 40 / LogL: -11230.361 / Time: 0h:0m:6s (0h:0m:10s left) -Iteration 50 / LogL: -11225.336 / Time: 0h:0m:7s (0h:0m:8s left) -Iteration 60 / LogL: -11225.097 / Time: 0h:0m:9s (0h:0m:6s left) -UPDATE BEST LOG-LIKELIHOOD: -11224.925 -Estimate model parameters (epsilon = 0.100) -UPDATE BEST LOG-LIKELIHOOD: -11224.865 -Iteration 70 / LogL: -11225.871 / Time: 0h:0m:10s (0h:0m:4s left) -Iteration 80 / LogL: -11224.956 / Time: 0h:0m:11s (0h:0m:3s left) -Iteration 90 / LogL: -11291.673 / Time: 0h:0m:12s (0h:0m:1s left) -Iteration 100 / LogL: -11225.702 / Time: 0h:0m:13s (0h:0m:0s left) -TREE SEARCH COMPLETED AFTER 103 ITERATIONS / Time: 0h:0m:14s +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: -11224.865 -Optimal log-likelihood: -11224.864 -Rate parameters: A-C: 1.60313 A-G: 2.71561 A-T: 1.82809 C-G: 2.14937 C-T: 2.71561 G-T: 1.00000 -Base frequencies: A: 0.250 C: 0.250 G: 0.250 T: 0.250 -Proportion of invariable sites: 0.084 -Gamma shape alpha: 1.560 -Parameters optimization took 1 rounds (0.022 sec) -BEST SCORE FOUND : -11224.864 -Total tree length: 12.528 +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: 24.530 sec (0h:0m:24s) -Wall-clock time used for tree search: 12.778 sec (0h:0m:12s) -Total CPU time used: 27.235 sec (0h:0m:27s) -Total wall-clock time used: 14.145 sec (0h:0m:14s) +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 @@ -5074,12 +5011,14 @@ Likelihood distances: example.phy.mldist Screen log file: example.phy.log -Date and Time: Sat Jul 17 19:30:47 2021 -27.30user 0.43system 0:14.21elapsed 195%CPU (0avgtext+0avgdata 11192maxresident)k -0inputs+264outputs (0major+1225minor)pagefaults 0swaps -+ rm -rf /tmp/iqtree-test.8Umpcp -61.27user 1.11system 0:48.87elapsed 127%CPU (0avgtext+0avgdata 11788maxresident)k -0inputs+584outputs (0major+69873minor)pagefaults 0swaps +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 @@ -5090,7 +5029,7 @@ 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 -j18 install DESTDIR=/build/iqtree-1.6.9\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + 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 @@ -5108,104 +5047,104 @@ 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/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= +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 /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= +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/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= +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/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= +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 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/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/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= +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 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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]: 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' -[ 6%] Built target gsl -[ 10%] Built target sprng -[ 12%] Built target kernelsse -[ 15%] Built target nclextra -make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend -[ 25%] Built target ncl -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend +make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build +[ 39%] Built target kernelsse [ 41%] Built target pll -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' -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]: 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= [ 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' -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 [ 52%] Built target utils -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.omp' -make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend -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' 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]: 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' +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= -[ 62%] Built target pda +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 @@ -5250,7 +5189,7 @@ -- 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 -j18 install DESTDIR=/build/iqtree-1.6.9\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + 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 @@ -5266,109 +5205,109 @@ 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/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/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= +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/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= +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/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= -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= +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/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= +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/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= +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 vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build 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 -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 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]: 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 '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 'lbfgsb/CMakeFiles/lbfgsb.dir/build'. +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]: 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' -make[4]: Nothing to be done for 'whtest/CMakeFiles/whtest.dir/build'. -make[4]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' -make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build +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 -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build -[ 1%] Built target lbfgsb -make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend -[ 9%] Built target gsl -[ 9%] Built target sprng -[ 10%] Built target vectorclass 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 '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 'pll/CMakeFiles/pll.dir/build'. +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= -[ 13%] Built target nclextra -make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend +[ 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/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= -[ 19%] Built target whtest -[ 21%] Built target kernelsse +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 -[ 31%] Built target ncl -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend -[ 47%] Built target pll 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' +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' -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= +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 -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build -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 -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]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.serial' -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build -[ 62%] Built target pda 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' -[ 66%] Built target alignment +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' @@ -5408,7 +5347,7 @@ -- 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 -j18 install DESTDIR=/build/iqtree-1.6.9\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + 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 @@ -5431,90 +5370,89 @@ 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/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/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/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= -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= +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/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= +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/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= +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/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= +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 sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.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.mpi' -make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build +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 'vectorclass/CMakeFiles/vectorclass.dir/build'. -make[4]: Leaving 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 -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 'sprng/CMakeFiles/sprng.dir/build'. +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 lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build +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' -make[4]: Nothing to be done for 'lbfgsb/CMakeFiles/lbfgsb.dir/build'. -make[4]: Leaving 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' -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]: Leaving directory '/build/iqtree-1.6.9+dfsg/build.mpi' -make -f CMakeFiles/mympi.dir/build.make CMakeFiles/mympi.dir/build +[ 7%] Built target gsl 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]: 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 -[ 1%] Built target vectorclass 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 -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 'CMakeFiles/mympi.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' -[ 6%] Built target sprng -[ 7%] Built target lbfgsb -make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend -[ 11%] Built target gsl +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' -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= -[ 12%] Built target kernelsse +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 'whtest/CMakeFiles/whtest.dir/build'. +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' -[ 15%] Built target nclextra +[ 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= -[ 27%] Built target ncl -[ 27%] Built target mympi -[ 33%] Built target whtest -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend -[ 49%] Built target pll -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' -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]: 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' @@ -5522,6 +5460,7 @@ 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' @@ -5627,12 +5566,14 @@ 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/47667 and its subdirectories -I: Current time: Sat Jul 17 19:31:21 -12 2021 -I: pbuilder-time-stamp: 1626593481 +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