Diff of the two buildlogs: -- --- b1/build.log 2021-05-27 05:44:51.279050284 +0000 +++ b2/build.log 2021-05-27 06:06:06.549133559 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Jun 29 00:00:49 -12 2022 -I: pbuilder-time-stamp: 1656504049 +I: Current time: Thu May 27 19:44:55 +14 2021 +I: pbuilder-time-stamp: 1622094295 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -17,8 +17,8 @@ I: copying [./iqtree_1.6.12+dfsg-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' -gpgv: keyblock resource '/tmp/dpkg-verify-sig.y66gU2R2/trustedkeys.kbx': General error -gpgv: Signature made Wed Dec 4 01:13:46 2019 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.YRs9LGwb/trustedkeys.kbx': General error +gpgv: Signature made Thu Dec 5 03:13:46 2019 +14 gpgv: using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1 gpgv: issuer "moeller@debian.org" gpgv: Can't check signature: No public key @@ -28,137 +28,171 @@ dpkg-source: info: unpacking iqtree_1.6.12+dfsg-1.debian.tar.xz I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/39002/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/31775/tmp/hooks/D01_modify_environment starting +debug: Running on ionos12-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/31775/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/31775/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,-fixfilepath 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]="1" [2]="4" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") + BASH_VERSION='5.1.4(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,-fixfilepath 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='c5d8111758fb4e939e492e4b7dbf76b3' - 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='39002' - PS1='# ' - PS2='> ' + INVOCATION_ID=c40ed80915e5424982c5cd5e640af9fa + 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=31775 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.N9BuDt5HdX/pbuilderrc_lSSe --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.N9BuDt5HdX/b1 --logfile b1/build.log iqtree_1.6.12+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.N9BuDt5HdX/pbuilderrc_t576 --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.N9BuDt5HdX/b2 --logfile b2/build.log --extrapackages usrmerge iqtree_1.6.12+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 ionos16-i386 4.19.0-16-amd64 #1 SMP Debian 4.19.181-1 (2021-03-19) x86_64 GNU/Linux + Linux i-capture-the-hostname 4.19.0-16-686-pae #1 SMP Debian 4.19.181-1 (2021-03-19) i686 GNU/Linux I: ls -l /bin - total 5776 - -rwxr-xr-x 1 root root 1367848 Feb 24 2021 bash - -rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzcat - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep - -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 17768 Jul 20 2020 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore - -rwxr-xr-x 1 root root 38824 Sep 22 2020 cat - -rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp - -rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod - -rwxr-xr-x 1 root root 75752 Sep 22 2020 chown - -rwxr-xr-x 1 root root 157960 Sep 22 2020 cp - -rwxr-xr-x 1 root root 128724 Dec 10 2020 dash - -rwxr-xr-x 1 root root 124904 Sep 22 2020 date - -rwxr-xr-x 1 root root 92172 Sep 22 2020 dd - -rwxr-xr-x 1 root root 100752 Sep 22 2020 df - -rwxr-xr-x 1 root root 153964 Sep 22 2020 dir - -rwxr-xr-x 1 root root 83644 Feb 7 2021 dmesg - lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname - -rwxr-xr-x 1 root root 34664 Sep 22 2020 echo - -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep - -rwxr-xr-x 1 root root 34664 Sep 22 2020 false - -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep - -rwxr-xr-x 1 root root 71928 Feb 7 2021 findmnt - -rwsr-xr-x 1 root root 30112 Feb 26 2021 fusermount - -rwxr-xr-x 1 root root 210488 Nov 9 2020 grep - -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip - -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe - -rwxr-xr-x 1 root root 100952 Mar 2 2021 gzip - -rwxr-xr-x 1 root root 21916 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 83980 Sep 22 2020 ln - -rwxr-xr-x 1 root root 55572 Feb 7 2020 login - -rwxr-xr-x 1 root root 153964 Sep 22 2020 ls - -rwxr-xr-x 1 root root 153124 Feb 7 2021 lsblk - -rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir - -rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod - -rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp - -rwxr-xr-x 1 root root 58920 Feb 7 2021 more - -rwsr-xr-x 1 root root 50720 Feb 7 2021 mount - -rwxr-xr-x 1 root root 13856 Feb 7 2021 mountpoint - -rwxr-xr-x 1 root root 157996 Sep 22 2020 mv - lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd - lrwxrwxrwx 1 root root 4 Feb 24 2021 rbash -> bash - -rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink - -rwxr-xr-x 1 root root 75720 Sep 22 2020 rm - -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir - -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Jun 28 03:46 sh -> dash - -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep - -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty - -rwsr-xr-x 1 root root 79396 Feb 7 2021 su - -rwxr-xr-x 1 root root 34696 Sep 22 2020 sync - -rwxr-xr-x 1 root root 602584 Feb 16 2021 tar - -rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 108520 Sep 22 2020 touch - -rwxr-xr-x 1 root root 34664 Sep 22 2020 true - -rwxr-xr-x 1 root root 17768 Feb 26 2021 ulockmgr_server - -rwsr-xr-x 1 root root 30236 Feb 7 2021 umount - -rwxr-xr-x 1 root root 34664 Sep 22 2020 uname - -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress - -rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir - -rwxr-xr-x 1 root root 63024 Feb 7 2021 wdctl - lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat - -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp - -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff - -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep - -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep - -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce - -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep - -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless - -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore - -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew -I: user script /srv/workspace/pbuilder/39002/tmp/hooks/D02_print_environment finished + total 5792 + -rwxr-xr-x 1 root root 1367848 Feb 25 10:57 bash + -rwxr-xr-x 3 root root 38280 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 38280 Jul 21 2020 bzcat + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep + -rwxr-xr-x 3 root root 38280 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 17768 Jul 21 2020 bzip2recover + lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore + -rwxr-xr-x 1 root root 38824 Sep 23 2020 cat + -rwxr-xr-x 1 root root 71624 Sep 23 2020 chgrp + -rwxr-xr-x 1 root root 67528 Sep 23 2020 chmod + -rwxr-xr-x 1 root root 75752 Sep 23 2020 chown + -rwxr-xr-x 1 root root 157960 Sep 23 2020 cp + -rwxr-xr-x 1 root root 128724 Dec 11 03:23 dash + -rwxr-xr-x 1 root root 124904 Sep 23 2020 date + -rwxr-xr-x 1 root root 92172 Sep 23 2020 dd + -rwxr-xr-x 1 root root 100752 Sep 23 2020 df + -rwxr-xr-x 1 root root 153964 Sep 23 2020 dir + -rwxr-xr-x 1 root root 83644 Feb 8 04:38 dmesg + lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname + -rwxr-xr-x 1 root root 34664 Sep 23 2020 echo + -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep + -rwxr-xr-x 1 root root 34664 Sep 23 2020 false + -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep + -rwxr-xr-x 1 root root 71928 Feb 8 04:38 findmnt + -rwsr-xr-x 1 root root 30112 Feb 27 06:12 fusermount + -rwxr-xr-x 1 root root 210488 Nov 10 2020 grep + -rwxr-xr-x 2 root root 2346 Mar 3 13:30 gunzip + -rwxr-xr-x 1 root root 6376 Mar 3 13:30 gzexe + -rwxr-xr-x 1 root root 100952 Mar 3 13:30 gzip + -rwxr-xr-x 1 root root 21916 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 83980 Sep 23 2020 ln + -rwxr-xr-x 1 root root 55572 Feb 8 2020 login + -rwxr-xr-x 1 root root 153964 Sep 23 2020 ls + -rwxr-xr-x 1 root root 153124 Feb 8 04:38 lsblk + -rwxr-xr-x 1 root root 96328 Sep 23 2020 mkdir + -rwxr-xr-x 1 root root 79912 Sep 23 2020 mknod + -rwxr-xr-x 1 root root 47048 Sep 23 2020 mktemp + -rwxr-xr-x 1 root root 58920 Feb 8 04:38 more + -rwsr-xr-x 1 root root 50720 Feb 8 04:38 mount + -rwxr-xr-x 1 root root 13856 Feb 8 04:38 mountpoint + -rwxr-xr-x 1 root root 157996 Sep 23 2020 mv + lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 19 05:38 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 38824 Sep 23 2020 pwd + lrwxrwxrwx 1 root root 4 Feb 25 10:57 rbash -> bash + -rwxr-xr-x 1 root root 46984 Sep 23 2020 readlink + -rwxr-xr-x 1 root root 75720 Sep 23 2020 rm + -rwxr-xr-x 1 root root 46984 Sep 23 2020 rmdir + -rwxr-xr-x 1 root root 22292 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 125036 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 May 27 19:46 sh -> bash + lrwxrwxrwx 1 root root 4 May 26 23:27 sh.distrib -> dash + -rwxr-xr-x 1 root root 34696 Sep 23 2020 sleep + -rwxr-xr-x 1 root root 83880 Sep 23 2020 stty + -rwsr-xr-x 1 root root 79396 Feb 8 04:38 su + -rwxr-xr-x 1 root root 34696 Sep 23 2020 sync + -rwxr-xr-x 1 root root 602584 Feb 17 23:55 tar + -rwxr-xr-x 1 root root 13860 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 108520 Sep 23 2020 touch + -rwxr-xr-x 1 root root 34664 Sep 23 2020 true + -rwxr-xr-x 1 root root 17768 Feb 27 06:12 ulockmgr_server + -rwsr-xr-x 1 root root 30236 Feb 8 04:38 umount + -rwxr-xr-x 1 root root 34664 Sep 23 2020 uname + -rwxr-xr-x 2 root root 2346 Mar 3 13:30 uncompress + -rwxr-xr-x 1 root root 153964 Sep 23 2020 vdir + -rwxr-xr-x 1 root root 63024 Feb 8 04:38 wdctl + lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Mar 3 13:30 zcat + -rwxr-xr-x 1 root root 1678 Mar 3 13:30 zcmp + -rwxr-xr-x 1 root root 5880 Mar 3 13:30 zdiff + -rwxr-xr-x 1 root root 29 Mar 3 13:30 zegrep + -rwxr-xr-x 1 root root 29 Mar 3 13:30 zfgrep + -rwxr-xr-x 1 root root 2081 Mar 3 13:30 zforce + -rwxr-xr-x 1 root root 7585 Mar 3 13:30 zgrep + -rwxr-xr-x 1 root root 2206 Mar 3 13:30 zless + -rwxr-xr-x 1 root root 1842 Mar 3 13:30 zmore + -rwxr-xr-x 1 root root 4553 Mar 3 13:30 znew +I: user script /srv/workspace/pbuilder/31775/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -322,7 +356,7 @@ Get: 110 http://deb.debian.org/debian bullseye/main i386 libsprng2-dev i386 2.0a-13 [83.4 kB] Get: 111 http://deb.debian.org/debian bullseye/main i386 mpi-default-dev i386 1.13 [5476 B] Get: 112 http://deb.debian.org/debian bullseye/main i386 time i386 1.9-0.1 [50.9 kB] -Fetched 57.8 MB in 1s (44.1 MB/s) +Fetched 57.8 MB in 9s (6495 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19674 files and directories currently installed.) @@ -794,9 +828,41 @@ Building dependency tree... Reading state information... fakeroot is already the newest version (1.25.3-1.1). -0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +The following additional packages will be installed: + libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl +The following NEW packages will be installed: + libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge +0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. +Need to get 59.5 kB of archives. +After this operation, 157 kB of additional disk space will be used. +Get:1 http://deb.debian.org/debian bullseye/main i386 libnumber-compare-perl all 0.03-1.1 [6956 B] +Get:2 http://deb.debian.org/debian bullseye/main i386 libtext-glob-perl all 0.11-1 [8888 B] +Get:3 http://deb.debian.org/debian bullseye/main i386 libfile-find-rule-perl all 0.34-1 [30.6 kB] +Get:4 http://deb.debian.org/debian bullseye/main i386 usrmerge all 25 [13.0 kB] +debconf: delaying package configuration, since apt-utils is not installed +Fetched 59.5 kB in 0s (1720 kB/s) +Selecting previously unselected package libnumber-compare-perl. +(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 ... 28898 files and directories currently installed.) +Preparing to unpack .../libnumber-compare-perl_0.03-1.1_all.deb ... +Unpacking libnumber-compare-perl (0.03-1.1) ... +Selecting previously unselected package libtext-glob-perl. +Preparing to unpack .../libtext-glob-perl_0.11-1_all.deb ... +Unpacking libtext-glob-perl (0.11-1) ... +Selecting previously unselected package libfile-find-rule-perl. +Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ... +Unpacking libfile-find-rule-perl (0.34-1) ... +Selecting previously unselected package usrmerge. +Preparing to unpack .../archives/usrmerge_25_all.deb ... +Unpacking usrmerge (25) ... +Setting up libtext-glob-perl (0.11-1) ... +Setting up libnumber-compare-perl (0.03-1.1) ... +Setting up libfile-find-rule-perl (0.34-1) ... +Setting up usrmerge (25) ... +The system has been successfully converted. +Processing triggers for man-db (2.9.4-2) ... +Not building database; man-db/auto-update is not 'true'. I: Building the package -I: Running cd /build/iqtree-1.6.12+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-1.6.12+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 1.6.12+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -983,7 +1049,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/iqtree-1.6.12+dfsg' dh_auto_build -Bbuild.omp - cd build.omp && make -j18 "INSTALL=install --strip-program=true" VERBOSE=1 + cd build.omp && make -j10 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' /usr/bin/cmake -S/build/iqtree-1.6.12+dfsg -B/build/iqtree-1.6.12+dfsg/build.omp --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles /build/iqtree-1.6.12+dfsg/build.omp//CMakeFiles/progress.marks @@ -997,149 +1063,132 @@ cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/gsl /build/iqtree-1.6.12+dfsg/build.omp/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= 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-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/ncl /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/ncl /build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pll /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/pll /build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/lbfgsb /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= -make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/ncl /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/ncl /build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= +make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/nclextra /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/nclextra /build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/whtest /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/whtest /build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/sprng /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/sprng /build/iqtree-1.6.12+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/whtest /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/whtest /build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/vectorclass /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/vectorclass /build/iqtree-1.6.12+dfsg/build.omp/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pll /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/pll /build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/nclextra /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/nclextra /build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= Dependee "/build/iqtree-1.6.12+dfsg/build.omp/gsl/CMakeFiles/gsl.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/gsl/CMakeFiles/gsl.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.omp/gsl/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/gsl/CMakeFiles/gsl.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/pll.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/pll.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/pll.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/sprng/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/depend.internal". -Scanning dependencies of target gsl -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles/kernelsse.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles/kernelsse.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles/kernelsse.dir/depend.internal". -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/depend.internal". -make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.omp/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/lbfgsb/CMakeFiles/lbfgsb.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.omp/lbfgsb/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/lbfgsb/CMakeFiles/lbfgsb.dir/depend.internal". -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -Scanning dependencies of target sprng -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/depend.internal". -make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles/kernelsse.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles/kernelsse.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles/kernelsse.dir/depend.internal". +Scanning dependencies of target gsl Scanning dependencies of target lbfgsb make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build Dependee "/build/iqtree-1.6.12+dfsg/build.omp/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/vectorclass/CMakeFiles/vectorclass.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.omp/vectorclass/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/vectorclass/CMakeFiles/vectorclass.dir/depend.internal". +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -Scanning dependencies of target vectorclass -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/depend.internal". make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -Scanning dependencies of target whtest +Scanning dependencies of target vectorclass +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/sprng/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/depend.internal". make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -Scanning dependencies of target nclextra -make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build -Scanning dependencies of target ncl -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build -[ 0%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/pll.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/pll.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/pll.dir/depend.internal". +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' [ 1%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/binomial_tpe.cpp +[ 1%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/multinomial.cpp +Scanning dependencies of target sprng make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build +[ 1%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build -[ 2%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/binomial_tpe.cpp +[ 2%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/vectorclass && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/vectorclass/instrset_detect.cpp +cd /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/lbfgsb/lbfgsb_new.cpp +Scanning dependencies of target nclextra make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 3%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/pow_int.cpp -[ 3%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o +make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build -[ 3%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o -[ 4%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gaussinv.cpp -[ 5%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gauss.cpp -[ 6%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gausspdf.cpp +[ 2%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/lcg64.c -[ 6%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o +Scanning dependencies of target whtest +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/lbfgsb/lbfgsb_new.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/makeseed.c -[ 7%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o -[ 7%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/memory.c -cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/store.c -cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/primes-lcg64.c -[ 8%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o Scanning dependencies of target kernelsse -Scanning dependencies of target pll -[ 9%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/eigen.c -make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build -[ 10%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build +[ 3%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/mpdablock.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/vectorclass && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/vectorclass/instrset_detect.cpp +[ 4%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/eigen.c +[ 5%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o +/usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylokernelsse.cpp +Scanning dependencies of target ncl +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 11%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o +[ 6%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsassumptionsblock.cpp -[ 11%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o -[ 12%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o +Scanning dependencies of target pll +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +[ 6%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/alignment.c -/usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylokernelsse.cpp -[ 12%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/checkid.c -[ 12%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsblock.cpp -[ 12%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/eigen_sym.c In file included from /build/iqtree-1.6.12+dfsg/pll/alignment.c:40: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 14%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o -[ 14%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxscharactersblock.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/random.c -[ 15%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/bipartitionList.c -[ 15%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluateGenericSpecial.c -[ 15%] Linking CXX static library libvectorclass.a +[ 7%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/pow_int.cpp +[ 7%] Linking CXX static library libvectorclass.a cd /build/iqtree-1.6.12+dfsg/build.omp/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake -[ 15%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdatablock.cpp -[ 16%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/weisslambda.c -[ 17%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 -[ 18%] Linking C static library libsprng.a -cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c /usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o /usr/bin/ranlib libvectorclass.a -cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -/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 +[ 7%] Built target vectorclass +[ 8%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/makeseed.c +[ 9%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gauss.cpp +[ 10%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o +[ 10%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gaussinv.cpp +cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/memory.c +[ 10%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/store.c +[ 11%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/primes-lcg64.c +[ 12%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/bipartitionList.c +[ 13%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gausspdf.cpp +[ 13%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/checkid.c +[ 13%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msetsblock.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/bipartitionList.c:49: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); @@ -1151,22 +1200,59 @@ /build/iqtree-1.6.12+dfsg/pll/bipartitionList.c:332:3: note: in expansion of macro 'rax_posix_memalign' 332 | rax_posix_memalign ((void **)&(e->bitVector), PLL_BYTE_ALIGNMENT, (size_t)vectorLength * sizeof(unsigned int)); | ^~~~~~~~~~~~~~~~~~ +[ 13%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/eigen_sym.c +[ 14%] Linking C static library libsprng.a +cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+dfsg/build.omp/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 +[ 14%] Linking CXX static library libgsl.a +cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake +/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 +cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/cmake -E cmake_link_script CMakeFiles/gsl.dir/link.txt --verbose=1 /usr/bin/ranlib libsprng.a -[ 18%] Built target vectorclass make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 18%] Linking CXX static library libgsl.a -cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake -[ 19%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/fastDNAparsimony.c +/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 +[ 14%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluateGenericSpecial.c +[ 14%] Built target sprng +/usr/bin/ranlib libgsl.a +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +[ 15%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/random.c +[ 15%] Built target gsl +[ 15%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsblock.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/evaluateGenericSpecial.c:46: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 19%] Built target sprng -cd /build/iqtree-1.6.12+dfsg/build.omp/gsl && /usr/bin/cmake -E cmake_link_script CMakeFiles/gsl.dir/link.txt --verbose=1 -[ 19%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o +[ 16%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/weisslambda.c +[ 16%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/weisslambda_sub.c -/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 +[ 17%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/whtest.c +[ 18%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o +[ 18%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/whtest/whtest_wrapper.cpp +cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/whtest_sub.c +/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c: In function 'ReadData': +/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c:205:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 205 | fscanf ( ifp, "%c", &c ); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c:221:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 221 | fscanf ( ifp, "%c", &c ); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +[ 19%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxscharactersblock.cpp +[ 19%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdatablock.cpp +[ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretedatum.cpp +[ 21%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c +[ 22%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretematrix.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c:45: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); @@ -1196,11 +1282,29 @@ /build/iqtree-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c:936:3: note: in expansion of macro 'rax_posix_memalign' 936 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 80 * mxtips); | ^~~~~~~~~~~~~~~~~~ -[ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -/usr/bin/ranlib libgsl.a -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretedatum.cpp +[ 23%] Linking CXX static library libwhtest.a +cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.omp' -[ 20%] Built target gsl +[ 23%] Built target whtest +[ 24%] Linking CXX static library liblbfgsb.a +cd /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb && /usr/bin/cmake -E cmake_link_script CMakeFiles/lbfgsb.dir/link.txt --verbose=1 +[ 25%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/fastDNAparsimony.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-1.6.12+dfsg/build.omp' +[ 25%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/hardware.c +[ 25%] Built target lbfgsb +make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/utils /build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/utils.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/utils.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/utils.dir/depend.internal". In file included from /build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:113: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); @@ -1217,35 +1321,26 @@ /build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:1768:3: note: in expansion of macro 'rax_posix_memalign' 1768 | rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); | ^~~~~~~~~~~~~~~~~~ -[ 21%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretematrix.cpp -[ 21%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/hardware.c -[ 22%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/whtest.c -[ 23%] Building C object pll/CMakeFiles/pll.dir/hash.c.o /build/iqtree-1.6.12+dfsg/pll/hardware.c: In function 'pll_probe_cpu': /build/iqtree-1.6.12+dfsg/pll/hardware.c:93:9: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 93 | fscanf (fd, "%d", &id); | ^~~~~~~~~~~~~~~~~~~~~~ +Scanning dependencies of target utils +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build +[ 25%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancedatum.cpp +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +[ 25%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/eigendecomposition.cpp +[ 26%] Building C object pll/CMakeFiles/pll.dir/hash.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/hash.c -[ 23%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o +[ 27%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancesblock.cpp +[ 27%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/lexer.c -[ 23%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/whtest_sub.c -[ 24%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/whtest/whtest_wrapper.cpp -[ 25%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o +[ 28%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/makenewzGenericSpecial.c -/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c: In function 'ReadData': -/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c:205:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 205 | fscanf ( ifp, "%c", &c ); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c:221:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 221 | fscanf ( ifp, "%c", &c ); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -[ 26%] Building C object pll/CMakeFiles/pll.dir/models.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/models.c In file included from /build/iqtree-1.6.12+dfsg/pll/makenewzGenericSpecial.c:44: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); @@ -1263,22 +1358,30 @@ /build/iqtree-1.6.12+dfsg/pll/makenewzGenericSpecial.c:3074:3: note: in expansion of macro 'rax_posix_memalign' 3074 | rax_posix_memalign ((void **)&d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 20 * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ -[ 26%] Building C object pll/CMakeFiles/pll.dir/newick.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/newick.c +[ 29%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/modelsblock.cpp +[ 30%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msplitsblock.cpp +[ 30%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsemptyblock.cpp +[ 31%] Building C object pll/CMakeFiles/pll.dir/models.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/models.c In file included from /build/iqtree-1.6.12+dfsg/pll/models.c:53: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 27%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o +[ 32%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsexception.cpp +[ 32%] Building C object pll/CMakeFiles/pll.dir/newick.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/newick.c +[ 33%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsreader.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/newick.c:36: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ +[ 34%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/newviewGenericSpecial.c -[ 27%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancedatum.cpp -[ 27%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/genericParallelization.c In file included from /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c:49: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); @@ -1295,8 +1398,6 @@ /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c:2792:17: note: in expansion of macro 'rax_posix_memalign' 2792 | rax_posix_memalign ((void **)&ex3, PLL_BYTE_ALIGNMENT, requiredExpLength); | ^~~~~~~~~~~~~~~~~~ -[ 28%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/optimizeModel.c /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c: In function 'newviewAncestralIterative': /build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] 39 | #define rax_posix_memalign posix_memalign @@ -1309,99 +1410,152 @@ /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c:3800:3: note: in expansion of macro 'rax_posix_memalign' 3800 | rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof (double)); | ^~~~~~~~~~~~~~~~~~ -[ 29%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancesblock.cpp -[ 30%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/parsePartition.c +[ 34%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxssetreader.cpp +[ 35%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/gzstream.cpp +[ 36%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsstring.cpp +[ 36%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstaxablock.cpp +[ 37%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstoken.cpp +[ 37%] Linking CXX static library libnclextra.a +cd /build/iqtree-1.6.12+dfsg/build.omp/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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 +[ 37%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/optimization.cpp +/usr/bin/ranlib libnclextra.a +make[4]: Leaving directory '/build/iqtree-1.6.12+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-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/pda /build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/pda.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/pda.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/pda.dir/depend.internal". +Scanning dependencies of target pda +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +[ 38%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/circularnetwork.cpp +[ 39%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstreesblock.cpp +[ 40%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/stoprule.cpp +[ 40%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/greedy.cpp +[ 41%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/gurobiwrapper.cpp +[ 42%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/tools.cpp +[ 43%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/hashsplitset.cpp +[ 43%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/genericParallelization.c In file included from /build/iqtree-1.6.12+dfsg/pll/genericParallelization.c:43: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 30%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsemptyblock.cpp +[ 43%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdnetwork.cpp +[ 44%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pruning.cpp +[ 44%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/pllnni.cpp +[ 45%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/optimizeModel.c In file included from /build/iqtree-1.6.12+dfsg/pll/optimizeModel.c:47: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ +[ 46%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/parsePartition.c +[ 46%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/split.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/parsePartition.c:42: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 31%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsexception.cpp -[ 31%] Building C object pll/CMakeFiles/pll.dir/queue.c.o +[ 46%] Building C object pll/CMakeFiles/pll.dir/queue.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/queue.c -[ 32%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o +[ 47%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/checkpoint.cpp +[ 48%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/randomTree.c In file included from /build/iqtree-1.6.12+dfsg/pll/randomTree.c:37: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 32%] Building C object pll/CMakeFiles/pll.dir/recom.c.o +[ 48%] Building C object pll/CMakeFiles/pll.dir/recom.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/recom.c -[ 33%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsreader.cpp -[ 33%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxssetreader.cpp -[ 34%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/restartHashTable.c In file included from /build/iqtree-1.6.12+dfsg/pll/recom.c:43: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 35%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/searchAlgo.c +[ 48%] Linking CXX static library libncl.a +cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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 +[ 49%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/splitgraph.cpp +[ 50%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/restartHashTable.c In file included from /build/iqtree-1.6.12+dfsg/pll/restartHashTable.c:47: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 35%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/ssort.c +[ 51%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/searchAlgo.c In file included from /build/iqtree-1.6.12+dfsg/pll/searchAlgo.c:51: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 36%] Linking CXX static library libwhtest.a -cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+dfsg/build.omp/whtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/whtest.dir/link.txt --verbose=1 -[ 37%] Building C object pll/CMakeFiles/pll.dir/stack.c.o +/usr/bin/ranlib libncl.a +[ 51%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/ssort.c +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +[ 51%] Built target ncl +make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/alignment /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/alignment /build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/depend.internal". +[ 52%] Building C object pll/CMakeFiles/pll.dir/stack.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/stack.c -/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 -[ 37%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/topologies.c +Scanning dependencies of target alignment make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 37%] Built target whtest -[ 38%] Building C object pll/CMakeFiles/pll.dir/trash.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/trash.c -[ 39%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/treeIO.c +make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +[ 52%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/pattern.cpp +[ 52%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/topologies.c In file included from /build/iqtree-1.6.12+dfsg/pll/topologies.c:48: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 40%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsstring.cpp +[ 53%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/splitset.cpp +[ 54%] Building C object pll/CMakeFiles/pll.dir/trash.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/trash.c In file included from /build/iqtree-1.6.12+dfsg/pll/trash.c:48: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ +[ 55%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/treeIO.c +[ 55%] Building C object pll/CMakeFiles/pll.dir/utils.c.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/utils.c In file included from /build/iqtree-1.6.12+dfsg/pll/treeIO.c:49: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 40%] Building C object pll/CMakeFiles/pll.dir/utils.c.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/utils.c -[ 40%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstaxablock.cpp -[ 41%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstoken.cpp -[ 42%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o In file included from /build/iqtree-1.6.12+dfsg/pll/utils.c:70: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstreesblock.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:16, from /build/iqtree-1.6.12+dfsg/pll/utils.c:70: /build/iqtree-1.6.12+dfsg/pll/utils.c: In function 'initializePartitionData': @@ -1460,144 +1614,49 @@ /build/iqtree-1.6.12+dfsg/pll/utils.c:748:11: note: in expansion of macro 'rax_posix_memalign' 748 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->gapColumn),PLL_BYTE_ALIGNMENT, ((size_t)localTree->mxtips) * | ^~~~~~~~~~~~~~~~~~ -[ 42%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msetsblock.cpp -[ 43%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msplitsblock.cpp -[ 44%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/modelsblock.cpp -[ 45%] Linking CXX static library liblbfgsb.a -cd /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.omp' -[ 45%] Built target lbfgsb -make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/utils /build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/utils.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/utils.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/utils.dir/depend.internal". -Scanning dependencies of target utils -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 46%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o -[ 46%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/gzstream.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/optimization.cpp -[ 46%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/eigendecomposition.cpp -[ 47%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/stoprule.cpp -[ 48%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/tools.cpp -[ 48%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/pllnni.cpp -[ 49%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/checkpoint.cpp -[ 49%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/MPIHelper.cpp -[ 49%] Linking CXX static library libnclextra.a -cd /build/iqtree-1.6.12+dfsg/build.omp/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.omp' -[ 49%] Built target nclextra -make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/pda /build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/pda.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/pda.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/pda.dir/depend.internal". -Scanning dependencies of target pda -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 51%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o -[ 51%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o -[ 51%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o -[ 51%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/circularnetwork.cpp -[ 51%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/greedy.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/gurobiwrapper.cpp -[ 52%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/hashsplitset.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdnetwork.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/split.cpp -[ 53%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o -[ 54%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o -[ 55%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pruning.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/splitgraph.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/splitset.cpp -[ 55%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o +[ 56%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/alignment.cpp +[ 56%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/alignmentpairwise.cpp +[ 56%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pda/lpwrapper.c -[ 56%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o +[ 57%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/ecopd.cpp -[ 56%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o +[ 57%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/MPIHelper.cpp +/build/iqtree-1.6.12+dfsg/alignment/alignment.cpp:2925:92: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 2925 | void convert_range(const char *str, int &lower, int &upper, int &step_size, char* &endptr) throw (string) { + | ^~~~~ +[ 58%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/maalignment.cpp +[ 58%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/graph.cpp -[ 57%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdtree.cpp -[ 57%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdtreeset.cpp -[ 58%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/ecopdmtreeset.cpp [ 59%] Linking C static library libpll.a cd /build/iqtree-1.6.12+dfsg/build.omp/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.12+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 +[ 59%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignment.cpp /usr/bin/ranlib libpll.a make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 59%] Built target pll -[ 59%] Linking CXX static library libncl.a -cd /build/iqtree-1.6.12+dfsg/build.omp/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.omp' -[ 59%] Built target ncl -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/alignment /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/alignment /build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/depend.internal". -Scanning dependencies of target alignment -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o +[ 60%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdtree.cpp +[ 60%] Built target pll +[ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignmentpairwise.cpp -[ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o -[ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o -[ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/pattern.cpp -[ 62%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o -[ 62%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/alignmentpairwise.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/alignment.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/maalignment.cpp +[ 62%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o [ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignment.cpp +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdtreeset.cpp +[ 62%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignmentpairwiseplen.cpp -/build/iqtree-1.6.12+dfsg/alignment/alignment.cpp:2925:92: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 2925 | 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-1.6.12+dfsg/build.omp/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.omp' -[ 64%] Built target pda -[ 65%] Linking CXX static library libutils.a +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/ecopdmtreeset.cpp +[ 64%] Linking CXX static library libutils.a cd /build/iqtree-1.6.12+dfsg/build.omp/utils && /usr/bin/cmake -P CMakeFiles/utils.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.12+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-1.6.12+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-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/model /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/model /build/iqtree-1.6.12+dfsg/build.omp/model/CMakeFiles/model.dir/DependInfo.cmake --color= @@ -1607,36 +1666,32 @@ make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 66%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o -[ 66%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o -[ 67%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o +[ 64%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmarkov.cpp -[ 67%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o +[ 65%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o +[ 66%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelbin.cpp -[ 68%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o -[ 68%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o +[ 67%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o +[ 67%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modeldna.cpp -[ 69%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o -[ 70%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelfactory.cpp -[ 71%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelprotein.cpp -[ 71%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o -[ 72%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o -[ 72%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o +[ 67%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelset.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelsubst.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodel.cpp -[ 73%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodelplen.cpp -[ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategamma.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategammainvar.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterogeneity.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateinvar.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratemeyerdiscrete.cpp -[ 74%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratemeyerhaeseler.cpp +In file included from /build/iqtree-1.6.12+dfsg/model/modelset.h:23, + from /build/iqtree-1.6.12+dfsg/model/modelset.cpp:20: +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 142 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 149 | virtual void readRates(string str) throw(const char*); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 156 | virtual void readStateFreq(istream &in) throw(const char*); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 163 | virtual void readStateFreq(string str) throw(const char*); + | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelprotein.h:23, from /build/iqtree-1.6.12+dfsg/model/modelprotein.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -1655,8 +1710,8 @@ /build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 69 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelset.h:23, - from /build/iqtree-1.6.12+dfsg/model/modelset.cpp:20: +In file included from /build/iqtree-1.6.12+dfsg/model/modelbin.h:23, + from /build/iqtree-1.6.12+dfsg/model/modelbin.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -1690,6 +1745,9 @@ /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modeldna.cpp:240:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 240 | void ModelDNA::readRates(string str) throw(const char*) { + | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:24: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); @@ -1711,27 +1769,10 @@ /build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 69 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modeldna.cpp:240:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 240 | void ModelDNA::readRates(string str) throw(const char*) { - | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:30: /build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 78 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelbin.h:23, - from /build/iqtree-1.6.12+dfsg/model/modelbin.cpp:20: -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 142 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 149 | virtual void readRates(string str) throw(const char*); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 156 | virtual void readStateFreq(istream &in) throw(const char*); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 163 | virtual void readStateFreq(string str) throw(const char*); - | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); @@ -1745,14 +1786,15 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 74%] Building CXX object model/CMakeFiles/model.dir/ratekategory.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratekategory.cpp -[ 75%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratefree.cpp -[ 76%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratefreeinvar.cpp -[ 76%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterotachy.cpp +[ 68%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelsubst.cpp +[ 69%] Linking CXX static library libpda.a +cd /build/iqtree-1.6.12+dfsg/build.omp/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake +[ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodel.cpp +cd /build/iqtree-1.6.12+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 /build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:997:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 997 | void ModelMarkov::readRates(istream &in) throw(const char*, string) { | ^~~~~ @@ -1765,22 +1807,32 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:1095:45: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 1095 | void ModelMarkov::readStateFreq(string str) throw(const char*) { | ^~~~~ +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +[ 70%] Built target pda +[ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodelplen.cpp +[ 71%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategamma.cpp +[ 71%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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CMakeFiles/model.dir/ratekategory.cpp.o -c /build/iqtree-1.6.12+dfsg/model/ratekategory.cpp +[ 75%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratefree.cpp +[ 76%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratefreeinvar.cpp +[ 76%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterotachy.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterotachyinvar.cpp -[ 77%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelcodon.cpp -[ 77%] Building CXX object model/CMakeFiles/model.dir/modelmixture.cpp.o -[ 78%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmixture.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmorphology.cpp -[ 79%] Building CXX object model/CMakeFiles/model.dir/modelunrest.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelunrest.cpp -[ 80%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelliemarkov.cpp -[ 80%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomo.cpp -[ 81%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomomixture.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.12+dfsg/model/ratefree.cpp:13: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -1795,8 +1847,14 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 81%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelfactorymixlen.cpp +[ 77%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelcodon.cpp +[ 78%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmorphology.cpp +[ 78%] Building CXX object model/CMakeFiles/model.dir/modelmixture.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmixture.cpp +[ 79%] Building CXX object model/CMakeFiles/model.dir/modelunrest.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelunrest.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelmorphology.h:11, from /build/iqtree-1.6.12+dfsg/model/modelmorphology.cpp:8: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -1818,6 +1876,22 @@ /build/iqtree-1.6.12+dfsg/model/modelmorphology.cpp:44:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 44 | void ModelMorphology::readRates(istream &in) throw(const char*, string) { | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/model/modelcodon.h:11, + from /build/iqtree-1.6.12+dfsg/model/modelcodon.cpp:8: +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 142 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 149 | virtual void readRates(string str) throw(const char*); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 156 | virtual void readStateFreq(istream &in) throw(const char*); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 163 | virtual void readStateFreq(string str) throw(const char*); + | ^~~~~ +[ 80%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelliemarkov.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.cpp:8: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); @@ -1843,20 +1917,10 @@ /build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 78 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelcodon.h:11, - from /build/iqtree-1.6.12+dfsg/model/modelcodon.cpp:8: -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 142 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 149 | virtual void readRates(string str) throw(const char*); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 156 | virtual void readStateFreq(istream &in) throw(const char*); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 163 | virtual void readStateFreq(string str) throw(const char*); - | ^~~~~ +[ 80%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomo.cpp +[ 81%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomomixture.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelunrest.h:11, from /build/iqtree-1.6.12+dfsg/model/modelunrest.cpp:8: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -1871,10 +1935,16 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +[ 81%] Linking CXX static library libalignment.a +cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/cmake -P CMakeFiles/alignment.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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 +[ 81%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelfactorymixlen.cpp +/usr/bin/ranlib libalignment.a In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.12+dfsg/model/modelpomo.h:4, - from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.h:14, - from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.cpp:9: + from /build/iqtree-1.6.12+dfsg/model/modelpomo.cpp:1: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -1888,14 +1958,14 @@ 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelpomo.h:4, - from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.h:14, - from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.cpp:9: + from /build/iqtree-1.6.12+dfsg/model/modelpomo.cpp:1: /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.12+dfsg/model/modelpomo.h:4, - from /build/iqtree-1.6.12+dfsg/model/modelpomo.cpp:1: + from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.h:14, + from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.cpp:9: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -1909,11 +1979,13 @@ 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelpomo.h:4, - from /build/iqtree-1.6.12+dfsg/model/modelpomo.cpp:1: + from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.h:14, + from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.cpp:9: /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelfactorymixlen.cpp:12: +In file included from /build/iqtree-1.6.12+dfsg/model/modelliemarkov.h:11, + from /build/iqtree-1.6.12+dfsg/model/modelliemarkov.cpp:25: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -1926,8 +1998,7 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelliemarkov.h:11, - from /build/iqtree-1.6.12+dfsg/model/modelliemarkov.cpp:25: +In file included from /build/iqtree-1.6.12+dfsg/model/modelfactorymixlen.cpp:12: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -1940,11 +2011,6 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 81%] Linking CXX static library libalignment.a -cd /build/iqtree-1.6.12+dfsg/build.omp/alignment && /usr/bin/cmake -P CMakeFiles/alignment.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.omp' [ 81%] Built target alignment [ 82%] Linking CXX static library libkernelsse.a @@ -1970,42 +2036,26 @@ make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 84%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.cpp.o -[ 84%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o -[ 85%] 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-Werror=format-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-1.6.12+dfsg/tree/constrainttree.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/candidateset.cpp -[ 87%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 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Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/memslot.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/mtree.cpp +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/candidateset.cpp +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/mtreeset.cpp cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/ncbitree.cpp -[ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonode.cpp -[ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonodemixlen.cpp -[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertree.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertreeplen.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotree.cpp -[ 92%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o -[ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o +[ 89%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/node.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreemixlen.cpp -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreepars.cpp -[ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreesse.cpp In file included from /build/iqtree-1.6.12+dfsg/tree/iqtree.cpp:29: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); @@ -2019,6 +2069,22 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +[ 89%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonode.cpp +[ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonodemixlen.cpp +[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertree.cpp +[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertreeplen.cpp +[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotree.cpp +[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreemixlen.cpp +[ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreepars.cpp +[ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreesse.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.12+dfsg/tree/phylotree.cpp:34: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -2033,8 +2099,10 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 94%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/quartet.cpp +/build/iqtree-1.6.12+dfsg/tree/phylotree.cpp: In member function 'virtual int PhyloTree::getNumLhCat(SiteLoglType)': +/build/iqtree-1.6.12+dfsg/tree/phylotree.cpp:1202:1: warning: control reaches end of non-void function [-Wreturn-type] + 1202 | } + | ^ In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.12+dfsg/tree/phylotreemixlen.cpp:12: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -2049,8 +2117,6 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 95%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/supernode.cpp In file included from /build/iqtree-1.6.12+dfsg/tree/phylotreesse.cpp:35: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); @@ -2064,14 +2130,14 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +[ 94%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/quartet.cpp +[ 95%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/supernode.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/tinatree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/tinatree.cpp [ 96%] Building CXX object tree/CMakeFiles/tree.dir/parstree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/parstree.cpp -/build/iqtree-1.6.12+dfsg/tree/phylotree.cpp: In member function 'virtual int PhyloTree::getNumLhCat(SiteLoglType)': -/build/iqtree-1.6.12+dfsg/tree/phylotree.cpp:1202:1: warning: control reaches end of non-void function [-Wreturn-type] - 1202 | } - | ^ [ 97%] Linking CXX static library libtree.a cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/cmake -P CMakeFiles/tree.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.12+dfsg/build.omp/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree.dir/link.txt --verbose=1 @@ -2088,13 +2154,13 @@ make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 98%] Building CXX object CMakeFiles/iqtree.dir/main/phylotesting.cpp.o -[100%] Building CXX object CMakeFiles/iqtree.dir/main/main.cpp.o -[100%] Building CXX object CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o -[100%] Building CXX object CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o +[ 98%] Building CXX object CMakeFiles/iqtree.dir/main/main.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/main.cpp +[ 99%] Building CXX object CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/phyloanalysis.cpp +[ 99%] Building CXX object CMakeFiles/iqtree.dir/main/phylotesting.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/phylotesting.cpp +[100%] Building CXX object CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.omp -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/obsolete/parsmultistate.cpp /build/iqtree-1.6.12+dfsg/main/main.cpp:232:58: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 232 | out << " " << 8*sizeof(void*) << "-bit" << " built " << __DATE__; @@ -2119,6 +2185,14 @@ /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:30: +/build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 69 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:33: +/build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 78 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:35: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); @@ -2136,14 +2210,6 @@ /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:30: -/build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 69 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:33: -/build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 78 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:44: /build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 69 | virtual void readRates(istream &in) throw(const char*, string); @@ -2163,7 +2229,7 @@ # 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" VERBOSE=1 + cd build.serial && make -j10 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' /usr/bin/cmake -S/build/iqtree-1.6.12+dfsg -B/build/iqtree-1.6.12+dfsg/build.serial --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.12+dfsg/build.serial/CMakeFiles /build/iqtree-1.6.12+dfsg/build.serial//CMakeFiles/progress.marks @@ -2173,143 +2239,142 @@ 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-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/gsl /build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= 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-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/ncl /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/ncl /build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/lbfgsb /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/lbfgsb /build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pll /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/pll /build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/ncl /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/ncl /build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/gsl /build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/nclextra /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/nclextra /build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/whtest /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/whtest /build/iqtree-1.6.12+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/vectorclass /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/vectorclass /build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/sprng /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/sprng /build/iqtree-1.6.12+dfsg/build.serial/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/vectorclass /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/vectorclass /build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/pll.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/pll.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/pll.dir/depend.internal". +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/lbfgsb /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/lbfgsb /build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pll /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/pll /build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/depend.internal". +Scanning dependencies of target gsl +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.serial/CMakeFiles/kernelsse.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/CMakeFiles/kernelsse.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.serial/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/CMakeFiles/kernelsse.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/depend.internal". -Scanning dependencies of target lbfgsb +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/pll.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/pll.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/pll.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.serial/sprng/CMakeFiles/sprng.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/sprng/CMakeFiles/sprng.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.serial/sprng/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/sprng/CMakeFiles/sprng.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/whtest/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/depend.internal". Scanning dependencies of target vectorclass make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/depend.internal". -Scanning dependencies of target gsl -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +Scanning dependencies of target lbfgsb make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/depend.internal". make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/depend.internal". -make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/whtest/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/depend.internal". -Scanning dependencies of target sprng +make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +Scanning dependencies of target sprng make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build +[ 0%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/multinomial.cpp +[ 1%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/binomial_tpe.cpp Scanning dependencies of target nclextra -[ 1%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/vectorclass && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/vectorclass/instrset_detect.cpp -[ 2%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o -Scanning dependencies of target ncl make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/binomial_tpe.cpp make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build -[ 2%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build -cd /build/iqtree-1.6.12+dfsg/build.serial/lbfgsb && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/lbfgsb/lbfgsb_new.cpp -Scanning dependencies of target whtest +[ 2%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/vectorclass && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/vectorclass/instrset_detect.cpp make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -[ 3%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o -[ 3%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o +Scanning dependencies of target whtest make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/pow_int.cpp -[ 4%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/multinomial.cpp -[ 4%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gauss.cpp -[ 4%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -Scanning dependencies of target pll -[ 5%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o -Scanning dependencies of target kernelsse -cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gaussinv.cpp +[ 2%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o +[ 2%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/lcg64.c +cd /build/iqtree-1.6.12+dfsg/build.serial/lbfgsb && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/lbfgsb/lbfgsb_new.cpp +[ 3%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/mpdablock.cpp +Scanning dependencies of target kernelsse +[ 4%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build -[ 6%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/eigen.c make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gausspdf.cpp +[ 5%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o +/usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylokernelsse.cpp +Scanning dependencies of target ncl make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build -[ 7%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/makeseed.c -[ 7%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o -[ 8%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/memory.c -cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/store.c +make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/primes-lcg64.c -[ 9%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/mpdablock.cpp -[ 10%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -[ 11%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/eigen.c +[ 6%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsassumptionsblock.cpp -[ 12%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -[ 12%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o +Scanning dependencies of target pll +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 6%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/alignment.c -/usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylokernelsse.cpp -[ 12%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/checkid.c -[ 13%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/bipartitionList.c +[ 7%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/pow_int.cpp +[ 7%] Linking CXX static library libvectorclass.a +cd /build/iqtree-1.6.12+dfsg/build.serial/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake In file included from /build/iqtree-1.6.12+dfsg/pll/alignment.c:40: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 13%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluateGenericSpecial.c -[ 13%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsblock.cpp -[ 14%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -[ 15%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c -[ 15%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/fastDNAparsimony.c -cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/eigen_sym.c +cd /build/iqtree-1.6.12+dfsg/build.serial/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 +[ 8%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gauss.cpp +[ 8%] Built target vectorclass +[ 8%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gaussinv.cpp +[ 9%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gausspdf.cpp +[ 10%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/makeseed.c +[ 11%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/memory.c +[ 11%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/store.c +[ 12%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/bipartitionList.c +[ 12%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o +[ 12%] Linking CXX static library libgsl.a +cd /build/iqtree-1.6.12+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msetsblock.cpp +cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake +[ 13%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/primes-lcg64.c +cd /build/iqtree-1.6.12+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 In file included from /build/iqtree-1.6.12+dfsg/pll/bipartitionList.c:49: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 15%] Linking CXX static library libvectorclass.a -cd /build/iqtree-1.6.12+dfsg/build.serial/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake In file included from /build/iqtree-1.6.12+dfsg/pll/bipartitionList.c:29: /build/iqtree-1.6.12+dfsg/pll/bipartitionList.c: In function 'insertHashRF': /build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] @@ -2317,55 +2382,42 @@ /build/iqtree-1.6.12+dfsg/pll/bipartitionList.c:332:3: note: in expansion of macro 'rax_posix_memalign' 332 | rax_posix_memalign ((void **)&(e->bitVector), PLL_BYTE_ALIGNMENT, (size_t)vectorLength * sizeof(unsigned int)); | ^~~~~~~~~~~~~~~~~~ -cd /build/iqtree-1.6.12+dfsg/build.serial/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 -[ 16%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/random.c -/usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -/usr/bin/ranlib libvectorclass.a +/usr/bin/ranlib libgsl.a make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -[ 17%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/weisslambda.c -[ 17%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/hardware.c -[ 18%] Linking C static library libsprng.a -[ 18%] Built target vectorclass -cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake -[ 19%] Building C object pll/CMakeFiles/pll.dir/hash.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/hash.c -cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 +[ 13%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/checkid.c +[ 13%] Built target gsl +[ 14%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msplitsblock.cpp +[ 15%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/modelsblock.cpp +[ 15%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluateGenericSpecial.c In file included from /build/iqtree-1.6.12+dfsg/pll/evaluateGenericSpecial.c:46: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 19%] Linking CXX static library libgsl.a -cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake +[ 16%] Linking C static library libsprng.a +cd /build/iqtree-1.6.12+dfsg/build.serial/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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 /usr/bin/ranlib libsprng.a -In file included from /build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:113: -/build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined - 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); - | ^~~~~~~~~~~~~~~ -cd /build/iqtree-1.6.12+dfsg/build.serial/gsl && /usr/bin/cmake -E cmake_link_script CMakeFiles/gsl.dir/link.txt --verbose=1 +[ 16%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/eigen_sym.c +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 16%] Built target sprng +[ 17%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/random.c +[ 18%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/weisslambda.c +[ 18%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/weisslambda_sub.c +[ 19%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c In file included from /build/iqtree-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c:45: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -/build/iqtree-1.6.12+dfsg/pll/hardware.c: In function 'pll_probe_cpu': -/build/iqtree-1.6.12+dfsg/pll/hardware.c:93:9: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 93 | fscanf (fd, "%d", &id); - | ^~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:29: -/build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c: In function 'compressDNA': -/build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] - 39 | #define rax_posix_memalign posix_memalign -/build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:1692:7: note: in expansion of macro 'rax_posix_memalign' - 1692 | rax_posix_memalign ((void **) &(pr->partitionData[model]->parsVect), PLL_BYTE_ALIGNMENT, (size_t)compressedEntriesPadded * states * totalNodes * sizeof(parsimonyNumber)); - | ^~~~~~~~~~~~~~~~~~ -/build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] - 39 | #define rax_posix_memalign posix_memalign -/build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:1768:3: note: in expansion of macro 'rax_posix_memalign' - 1768 | rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); - | ^~~~~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c:31: /build/iqtree-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRCAT': /build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] @@ -2373,7 +2425,6 @@ /build/iqtree-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c:1175:3: note: in expansion of macro 'rax_posix_memalign' 1175 | rax_posix_memalign ((void **) &lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 4 * mxtips); | ^~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' /build/iqtree-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c: In function 'evaluatePartialGTRGAMMA': /build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] 39 | #define rax_posix_memalign posix_memalign @@ -2392,33 +2443,49 @@ /build/iqtree-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c:936:3: note: in expansion of macro 'rax_posix_memalign' 936 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 80 * mxtips); | ^~~~~~~~~~~~~~~~~~ -/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 -[ 19%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o -[ 19%] Built target sprng -cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/weisslambda_sub.c -/usr/bin/ranlib libgsl.a -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -[ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxscharactersblock.cpp -[ 20%] Built target gsl -[ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdatablock.cpp -[ 20%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/lexer.c -[ 21%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/makenewzGenericSpecial.c -[ 22%] Building C object pll/CMakeFiles/pll.dir/models.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/models.c -[ 22%] Building C object pll/CMakeFiles/pll.dir/newick.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/newick.c -[ 23%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o +[ 20%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/whtest.c -[ 24%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/newviewGenericSpecial.c -In file included from /build/iqtree-1.6.12+dfsg/pll/newick.c:36: +[ 21%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/fastDNAparsimony.c +In file included from /build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:113: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ +In file included from /build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:29: +/build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c: In function 'compressDNA': +/build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] + 39 | #define rax_posix_memalign posix_memalign +/build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:1692:7: note: in expansion of macro 'rax_posix_memalign' + 1692 | rax_posix_memalign ((void **) &(pr->partitionData[model]->parsVect), PLL_BYTE_ALIGNMENT, (size_t)compressedEntriesPadded * states * totalNodes * sizeof(parsimonyNumber)); + | ^~~~~~~~~~~~~~~~~~ +/build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] + 39 | #define rax_posix_memalign posix_memalign +/build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:1768:3: note: in expansion of macro 'rax_posix_memalign' + 1768 | rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); + | ^~~~~~~~~~~~~~~~~~ +[ 21%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/whtest_sub.c +[ 21%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/hardware.c +[ 22%] Building C object pll/CMakeFiles/pll.dir/hash.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/hash.c +/build/iqtree-1.6.12+dfsg/pll/hardware.c: In function 'pll_probe_cpu': +/build/iqtree-1.6.12+dfsg/pll/hardware.c:93:9: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 93 | fscanf (fd, "%d", &id); + | ^~~~~~~~~~~~~~~~~~~~~~ +/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c: In function 'ReadData': +/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c:205:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 205 | fscanf ( ifp, "%c", &c ); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c:221:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 221 | fscanf ( ifp, "%c", &c ); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +[ 22%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/lexer.c +[ 23%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/makenewzGenericSpecial.c +[ 24%] Building C object pll/CMakeFiles/pll.dir/models.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/models.c In file included from /build/iqtree-1.6.12+dfsg/pll/makenewzGenericSpecial.c:44: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); @@ -2436,23 +2503,50 @@ /build/iqtree-1.6.12+dfsg/pll/makenewzGenericSpecial.c:3074:3: note: in expansion of macro 'rax_posix_memalign' 3074 | rax_posix_memalign ((void **)&d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 20 * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ -[ 24%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/whtest_sub.c +[ 24%] Building C object pll/CMakeFiles/pll.dir/newick.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/newick.c In file included from /build/iqtree-1.6.12+dfsg/pll/models.c:53: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c: In function 'ReadData': +In file included from /build/iqtree-1.6.12+dfsg/pll/newick.c:36: +/build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined + 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); + | ^~~~~~~~~~~~~~~ +[ 25%] Linking CXX static library liblbfgsb.a +cd /build/iqtree-1.6.12+dfsg/build.serial/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake +[ 25%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsblock.cpp +cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.serial' +[ 25%] Built target lbfgsb +make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/utils /build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/utils.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/utils.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/utils.dir/depend.internal". +Scanning dependencies of target utils +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 25%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/eigendecomposition.cpp +[ 26%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/newviewGenericSpecial.c +[ 26%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/genericParallelization.c +In file included from /build/iqtree-1.6.12+dfsg/pll/genericParallelization.c:43: +/build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined + 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); + | ^~~~~~~~~~~~~~~ +[ 27%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/gzstream.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c:49: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c:205:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 205 | fscanf ( ifp, "%c", &c ); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -/build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c:221:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 221 | fscanf ( ifp, "%c", &c ); - | ^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c:32: /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c: In function 'pllNewviewIterative': /build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] @@ -2477,84 +2571,107 @@ /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c:3800:3: note: in expansion of macro 'rax_posix_memalign' 3800 | rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof (double)); | ^~~~~~~~~~~~~~~~~~ -[ 25%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o +[ 27%] Linking CXX static library libnclextra.a +cd /build/iqtree-1.6.12+dfsg/build.serial/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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 +[ 28%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/whtest/whtest_wrapper.cpp -[ 25%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/genericParallelization.c -In file included from /build/iqtree-1.6.12+dfsg/pll/genericParallelization.c:43: -/build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined - 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); - | ^~~~~~~~~~~~~~~ -[ 26%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o +/usr/bin/ranlib libnclextra.a +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 28%] Built target nclextra +make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/pda /build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/pda.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/pda.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/pda.dir/depend.internal". +Scanning dependencies of target pda +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 29%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/circularnetwork.cpp +[ 30%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/optimizeModel.c In file included from /build/iqtree-1.6.12+dfsg/pll/optimizeModel.c:47: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 27%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o +[ 31%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxscharactersblock.cpp +[ 31%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/optimization.cpp +[ 32%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/parsePartition.c In file included from /build/iqtree-1.6.12+dfsg/pll/parsePartition.c:42: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 27%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msetsblock.cpp -[ 28%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretedatum.cpp -[ 28%] Building C object pll/CMakeFiles/pll.dir/queue.c.o +[ 32%] Building C object pll/CMakeFiles/pll.dir/queue.c.o cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/queue.c -[ 29%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o +[ 33%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/randomTree.c -[ 29%] Building C object pll/CMakeFiles/pll.dir/recom.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/recom.c In file included from /build/iqtree-1.6.12+dfsg/pll/randomTree.c:37: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ +[ 33%] Building C object pll/CMakeFiles/pll.dir/recom.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/recom.c In file included from /build/iqtree-1.6.12+dfsg/pll/recom.c:43: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 30%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretematrix.cpp -[ 31%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o +[ 34%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/restartHashTable.c -[ 32%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/searchAlgo.c +[ 35%] Linking CXX static library libwhtest.a +cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake In file included from /build/iqtree-1.6.12+dfsg/pll/restartHashTable.c:47: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 32%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/ssort.c -[ 33%] Building C object pll/CMakeFiles/pll.dir/stack.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/stack.c -[ 33%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/topologies.c +cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/whtest.dir/link.txt --verbose=1 +[ 36%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/searchAlgo.c +/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-1.6.12+dfsg/build.serial' +[ 36%] Built target whtest +[ 37%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/stoprule.cpp +[ 37%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/greedy.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/searchAlgo.c:51: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 34%] Building C object pll/CMakeFiles/pll.dir/trash.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/trash.c +[ 37%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/ssort.c +[ 38%] Building C object pll/CMakeFiles/pll.dir/stack.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/stack.c +[ 38%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/topologies.c In file included from /build/iqtree-1.6.12+dfsg/pll/topologies.c:48: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 35%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/treeIO.c +[ 39%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/tools.cpp +[ 40%] Building C object pll/CMakeFiles/pll.dir/trash.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/trash.c In file included from /build/iqtree-1.6.12+dfsg/pll/trash.c:48: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 35%] Building C object pll/CMakeFiles/pll.dir/utils.c.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/utils.c -[ 35%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancedatum.cpp +[ 41%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/treeIO.c In file included from /build/iqtree-1.6.12+dfsg/pll/treeIO.c:49: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ +[ 41%] Building C object pll/CMakeFiles/pll.dir/utils.c.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/utils.c +[ 41%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/pllnni.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/utils.c:70: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); @@ -2617,120 +2734,69 @@ /build/iqtree-1.6.12+dfsg/pll/utils.c:748:11: note: in expansion of macro 'rax_posix_memalign' 748 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->gapColumn),PLL_BYTE_ALIGNMENT, ((size_t)localTree->mxtips) * | ^~~~~~~~~~~~~~~~~~ -[ 36%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o +[ 42%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/gurobiwrapper.cpp +[ 43%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/hashsplitset.cpp +[ 43%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdatablock.cpp +[ 44%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/checkpoint.cpp +[ 44%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/MPIHelper.cpp +[ 44%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdnetwork.cpp +[ 45%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretedatum.cpp +[ 46%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pruning.cpp +[ 47%] Linking C static library libpll.a +cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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 +/usr/bin/ranlib libpll.a +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 47%] Built target pll +[ 48%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretematrix.cpp +[ 48%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancedatum.cpp +[ 49%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancesblock.cpp -[ 37%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msplitsblock.cpp -[ 38%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/modelsblock.cpp -[ 38%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o +[ 49%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsemptyblock.cpp -[ 39%] Linking CXX static library libwhtest.a -cd /build/iqtree-1.6.12+dfsg/build.serial/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.serial' -[ 39%] Built target whtest -[ 40%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o +[ 50%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsexception.cpp -[ 41%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o -[ 41%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxssetreader.cpp +[ 50%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/split.cpp +[ 51%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsreader.cpp -[ 42%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o +[ 51%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxssetreader.cpp +[ 52%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsstring.cpp -[ 42%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o +[ 52%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstaxablock.cpp -[ 43%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o +[ 53%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstoken.cpp -[ 44%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstreesblock.cpp -[ 45%] Linking CXX static library liblbfgsb.a -cd /build/iqtree-1.6.12+dfsg/build.serial/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.serial' -[ 45%] Built target lbfgsb -make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/utils /build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/utils.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/utils.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/utils.dir/depend.internal". -Scanning dependencies of target utils -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -[ 45%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o -[ 45%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o -[ 46%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/eigendecomposition.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/optimization.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/gzstream.cpp -[ 47%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/stoprule.cpp -[ 48%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/tools.cpp -[ 48%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/pllnni.cpp -[ 49%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/checkpoint.cpp -[ 49%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/MPIHelper.cpp -[ 49%] Linking CXX static library libnclextra.a -cd /build/iqtree-1.6.12+dfsg/build.serial/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+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-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/pda /build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/pda.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/pda.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/pda.dir/depend.internal". -Scanning dependencies of target pda -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -[ 49%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o -[ 50%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/greedy.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/circularnetwork.cpp -[ 51%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/gurobiwrapper.cpp -[ 52%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/hashsplitset.cpp -[ 52%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdnetwork.cpp -[ 53%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pruning.cpp -[ 53%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/split.cpp [ 54%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/splitgraph.cpp -[ 55%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o +[ 55%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstreesblock.cpp +[ 56%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/splitset.cpp -[ 55%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o +[ 56%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pda/lpwrapper.c -[ 56%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o +[ 57%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/ecopd.cpp -[ 56%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o +[ 57%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/graph.cpp -[ 57%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o +[ 58%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdtree.cpp -[ 57%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o +[ 58%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdtreeset.cpp -[ 58%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o +[ 59%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/ecopdmtreeset.cpp -[ 59%] Linking C static library libpll.a -cd /build/iqtree-1.6.12+dfsg/build.serial/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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 -/usr/bin/ranlib libpll.a -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -[ 59%] Built target pll [ 59%] Linking CXX static library libncl.a cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.12+dfsg/build.serial/ncl && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncl.dir/link.txt --verbose=1 @@ -2747,78 +2813,46 @@ make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -[ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o [ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/alignment.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/alignmentpairwise.cpp [ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o +[ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/pattern.cpp +cd /build/iqtree-1.6.12+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/alignmentpairwise.cpp [ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o -[ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o -[ 62%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/maalignment.cpp +[ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignment.cpp -[ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignmentpairwise.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignmentpairwiseplen.cpp -/build/iqtree-1.6.12+dfsg/alignment/alignment.cpp:2925:92: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 2925 | 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-1.6.12+dfsg/build.serial/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.serial' -[ 64%] Built target pda -[ 65%] Linking CXX static library libutils.a +[ 62%] Linking CXX static library libutils.a cd /build/iqtree-1.6.12+dfsg/build.serial/utils && /usr/bin/cmake -P CMakeFiles/utils.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.serial' -[ 65%] Built target utils +[ 62%] Built target utils make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/model /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/model /build/iqtree-1.6.12+dfsg/build.serial/model/CMakeFiles/model.dir/DependInfo.cmake --color= Dependee "/build/iqtree-1.6.12+dfsg/build.serial/model/CMakeFiles/model.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/model/CMakeFiles/model.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.serial/model/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.serial/model/CMakeFiles/model.dir/depend.internal". +/build/iqtree-1.6.12+dfsg/alignment/alignment.cpp:2925:92: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 2925 | void convert_range(const char *str, int &lower, int &upper, int &step_size, char* &endptr) throw (string) { + | ^~~~~ Scanning dependencies of target model make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build +cd /build/iqtree-1.6.12+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignmentpairwise.cpp make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -[ 66%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modeldna.cpp -[ 67%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o -[ 67%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o -[ 67%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o -[ 68%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o +[ 63%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmarkov.cpp +[ 64%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignmentpairwiseplen.cpp +[ 65%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelbin.cpp -[ 68%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o -[ 70%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o -[ 70%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o -[ 71%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelfactory.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelprotein.cpp -[ 72%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o -[ 72%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelset.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelsubst.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodel.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodelplen.cpp -[ 73%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategamma.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterogeneity.cpp -[ 73%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateinvar.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategammainvar.cpp -[ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -[ 74%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratemeyerdiscrete.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratemeyerhaeseler.cpp -In file included from /build/iqtree-1.6.12+dfsg/model/modelset.h:23, - from /build/iqtree-1.6.12+dfsg/model/modelset.cpp:20: +[ 66%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modeldna.cpp +In file included from /build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -2831,8 +2865,8 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.h:23, - from /build/iqtree-1.6.12+dfsg/model/modeldna.cpp:20: +In file included from /build/iqtree-1.6.12+dfsg/model/modelbin.h:23, + from /build/iqtree-1.6.12+dfsg/model/modelbin.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -2845,12 +2879,8 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.cpp:20: -/build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 91 | virtual void readRates(string str) throw(const char*); - | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelbin.h:23, - from /build/iqtree-1.6.12+dfsg/model/modelbin.cpp:20: +In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.h:23, + from /build/iqtree-1.6.12+dfsg/model/modeldna.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -2863,9 +2893,33 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.cpp:20: +/build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 91 | virtual void readRates(string str) throw(const char*); + | ^~~~~ /build/iqtree-1.6.12+dfsg/model/modeldna.cpp:240:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 240 | void ModelDNA::readRates(string str) throw(const char*) { | ^~~~~ +[ 66%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o +[ 67%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelfactory.cpp +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelprotein.cpp +/build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:997:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 997 | void ModelMarkov::readRates(istream &in) throw(const char*, string) { + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:1052:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 1052 | void ModelMarkov::readRates(string str) throw(const char*) { + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:1081:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 1081 | void ModelMarkov::readStateFreq(istream &in) throw(const char*) { + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:1095:45: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 1095 | void ModelMarkov::readStateFreq(string str) throw(const char*) { + | ^~~~~ +[ 67%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelset.cpp +[ 68%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelsubst.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelprotein.h:23, from /build/iqtree-1.6.12+dfsg/model/modelprotein.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -2884,6 +2938,9 @@ /build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 69 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelprotein.cpp:651:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 651 | void ModelProtein::readRates(istream &in) throw(const char*, string) { + | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:24: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); @@ -2901,9 +2958,6 @@ /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelprotein.cpp:651:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 651 | void ModelProtein::readRates(istream &in) throw(const char*, string) { - | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:27: /build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 69 | virtual void readRates(istream &in) throw(const char*, string); @@ -2912,7 +2966,8 @@ /build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 78 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:20: +In file included from /build/iqtree-1.6.12+dfsg/model/modelset.h:23, + from /build/iqtree-1.6.12+dfsg/model/modelset.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -2925,38 +2980,35 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +[ 69%] Linking CXX static library libpda.a +cd /build/iqtree-1.6.12+dfsg/build.serial/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake +[ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodel.cpp +cd /build/iqtree-1.6.12+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 +[ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodelplen.cpp +/usr/bin/ranlib libpda.a +[ 71%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategamma.cpp +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 71%] Built target pda +[ 71%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategammainvar.cpp +[ 72%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterogeneity.cpp +[ 73%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateinvar.cpp +[ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratemeyerdiscrete.cpp +[ 74%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratemeyerhaeseler.cpp [ 74%] Building CXX object model/CMakeFiles/model.dir/ratekategory.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratekategory.cpp [ 75%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratefree.cpp [ 76%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratefreeinvar.cpp -[ 76%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterotachy.cpp -[ 77%] Building CXX object model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterotachyinvar.cpp -/build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:997:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 997 | void ModelMarkov::readRates(istream &in) throw(const char*, string) { - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:1052:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 1052 | void ModelMarkov::readRates(string str) throw(const char*) { - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:1081:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 1081 | void ModelMarkov::readStateFreq(istream &in) throw(const char*) { - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:1095:45: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 1095 | void ModelMarkov::readStateFreq(string str) throw(const char*) { - | ^~~~~ -[ 77%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelcodon.cpp -[ 78%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmorphology.cpp -[ 78%] Building CXX object model/CMakeFiles/model.dir/modelmixture.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmixture.cpp -[ 79%] Building CXX object model/CMakeFiles/model.dir/modelunrest.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelunrest.cpp -[ 80%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelliemarkov.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.12+dfsg/model/ratefree.cpp:13: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -2971,33 +3023,16 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 80%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomo.cpp -[ 81%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomomixture.cpp -[ 81%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelfactorymixlen.cpp -In file included from /build/iqtree-1.6.12+dfsg/model/modelmorphology.h:11, - from /build/iqtree-1.6.12+dfsg/model/modelmorphology.cpp:8: -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 142 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 149 | virtual void readRates(string str) throw(const char*); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 156 | virtual void readStateFreq(istream &in) throw(const char*); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 163 | virtual void readStateFreq(string str) throw(const char*); - | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelmorphology.cpp:8: -/build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 78 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmorphology.cpp:44:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 44 | void ModelMorphology::readRates(istream &in) throw(const char*, string) { - | ^~~~~ +[ 76%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterotachy.cpp +[ 77%] Building CXX object model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterotachyinvar.cpp +[ 77%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelcodon.cpp +[ 78%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmorphology.cpp +[ 78%] Building CXX object model/CMakeFiles/model.dir/modelmixture.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmixture.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelcodon.h:11, from /build/iqtree-1.6.12+dfsg/model/modelcodon.cpp:8: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -3012,6 +3047,9 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +[ 79%] Building CXX object model/CMakeFiles/model.dir/modelunrest.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelunrest.cpp +[ 80%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.cpp:8: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); @@ -3025,6 +3063,7 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelliemarkov.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.cpp:9: /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); @@ -3037,6 +3076,33 @@ /build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 78 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/model/modelmorphology.h:11, + from /build/iqtree-1.6.12+dfsg/model/modelmorphology.cpp:8: +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 142 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 149 | virtual void readRates(string str) throw(const char*); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 156 | virtual void readStateFreq(istream &in) throw(const char*); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 163 | virtual void readStateFreq(string str) throw(const char*); + | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/model/modelmorphology.cpp:8: +/build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 78 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmorphology.cpp:44:46: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 44 | void ModelMorphology::readRates(istream &in) throw(const char*, string) { + | ^~~~~ +[ 80%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomo.cpp +[ 81%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomomixture.cpp +[ 81%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelfactorymixlen.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelunrest.h:11, from /build/iqtree-1.6.12+dfsg/model/modelunrest.cpp:8: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -3151,43 +3217,26 @@ make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' [ 84%] Building CXX object tree/CMakeFiles/tree.dir/constrainttree.cpp.o -[ 84%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o -[ 85%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o +[ 84%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/constrainttree.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/iqtree.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/matree.cpp -[ 85%] Building CXX object tree/CMakeFiles/tree.dir/ncbitree.cpp.o -[ 85%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/ncbitree.cpp +[ 85%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o +[ 85%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/mtree.cpp +[ 86%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/candidateset.cpp -[ 86%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o -[ 87%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.cpp.o +[ 87%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/iqtree.cpp [ 87%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o -[ 88%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/matree.cpp cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/memslot.cpp cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/mexttree.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/mtree.cpp +[ 88%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o +[ 89%] Building CXX object tree/CMakeFiles/tree.dir/mtreeset.cpp.o +[ 89%] Building CXX object tree/CMakeFiles/tree.dir/ncbitree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/mtreeset.cpp -[ 89%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o -[ 89%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o -[ 90%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o -[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonodemixlen.cpp +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/ncbitree.cpp cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/node.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonode.cpp -[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertree.cpp -[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotree.cpp -[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreemixlen.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertreeplen.cpp -[ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o -[ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreepars.cpp -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreesse.cpp -In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, - from /build/iqtree-1.6.12+dfsg/tree/phylotreemixlen.cpp:12: +In file included from /build/iqtree-1.6.12+dfsg/tree/iqtree.cpp:29: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -3200,7 +3249,24 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/tree/phylotreesse.cpp:35: +[ 89%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonode.cpp +[ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonodemixlen.cpp +[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertree.cpp +[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertreeplen.cpp +[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotree.cpp +[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreemixlen.cpp +[ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreepars.cpp +[ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreesse.cpp +In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, + from /build/iqtree-1.6.12+dfsg/tree/phylotree.cpp:34: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -3213,7 +3279,8 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/tree/iqtree.cpp:29: +In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, + from /build/iqtree-1.6.12+dfsg/tree/phylotreemixlen.cpp:12: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -3226,10 +3293,7 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 94%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/quartet.cpp -In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, - from /build/iqtree-1.6.12+dfsg/tree/phylotree.cpp:34: +In file included from /build/iqtree-1.6.12+dfsg/tree/phylotreesse.cpp:35: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -3242,16 +3306,18 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +/build/iqtree-1.6.12+dfsg/tree/phylotree.cpp: In member function 'virtual int PhyloTree::getNumLhCat(SiteLoglType)': +/build/iqtree-1.6.12+dfsg/tree/phylotree.cpp:1202:1: warning: control reaches end of non-void function [-Wreturn-type] + 1202 | } + | ^ +[ 94%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/quartet.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/supernode.cpp [ 95%] Building CXX object tree/CMakeFiles/tree.dir/tinatree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/tinatree.cpp [ 96%] Building CXX object tree/CMakeFiles/tree.dir/parstree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/parstree.cpp -/build/iqtree-1.6.12+dfsg/tree/phylotree.cpp: In member function 'virtual int PhyloTree::getNumLhCat(SiteLoglType)': -/build/iqtree-1.6.12+dfsg/tree/phylotree.cpp:1202:1: warning: control reaches end of non-void function [-Wreturn-type] - 1202 | } - | ^ [ 97%] Linking CXX static library libtree.a cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/cmake -P CMakeFiles/tree.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.12+dfsg/build.serial/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree.dir/link.txt --verbose=1 @@ -3268,14 +3334,14 @@ make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+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 -[ 99%] Building CXX object CMakeFiles/iqtree.dir/main/phylotesting.cpp.o -/usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/main.cpp -[100%] Building CXX object CMakeFiles/iqtree.dir/obsolete/parsmultistate.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-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/phyloanalysis.cpp -/usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/phylotesting.cpp +[ 99%] Building CXX object CMakeFiles/iqtree.dir/obsolete/parsmultistate.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/obsolete/parsmultistate.cpp +[100%] 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-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/main.cpp +/usr/bin/c++ -DBINARY32 -DIQ_TREE -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/build/iqtree-1.6.12+dfsg/build.serial -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/phylotesting.cpp /build/iqtree-1.6.12+dfsg/main/main.cpp:232:58: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 232 | out << " " << 8*sizeof(void*) << "-bit" << " built " << __DATE__; | ^~~~~~~~ @@ -3295,6 +3361,18 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:21: +/build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 91 | virtual void readRates(string str) throw(const char*); + | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:30: +/build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 69 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:33: +/build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 78 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:35: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); @@ -3308,26 +3386,14 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:21: -/build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 91 | virtual void readRates(string str) throw(const char*); - | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:36: /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:30: -/build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 69 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:44: /build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 69 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:33: -/build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 78 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp: In function 'std::string getSeqTypeName(SeqType)': /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:164:1: warning: control reaches end of non-void function [-Wreturn-type] 164 | } @@ -3343,7 +3409,7 @@ # 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" VERBOSE=1 + cd build.mpi && make -j10 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' /usr/bin/cmake -S/build/iqtree-1.6.12+dfsg -B/build/iqtree-1.6.12+dfsg/build.mpi --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.12+dfsg/build.mpi/CMakeFiles /build/iqtree-1.6.12+dfsg/build.mpi//CMakeFiles/progress.marks @@ -3353,154 +3419,147 @@ 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-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/gsl /build/iqtree-1.6.12+dfsg/build.mpi/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= 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-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/ncl /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/ncl /build/iqtree-1.6.12+dfsg/build.mpi/ncl/CMakeFiles/ncl.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-1.6.12+dfsg/build.mpi' +make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend +cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/gsl /build/iqtree-1.6.12+dfsg/build.mpi/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/lbfgsb /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb /build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/ncl /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/ncl /build/iqtree-1.6.12+dfsg/build.mpi/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pll /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/pll /build/iqtree-1.6.12+dfsg/build.mpi/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= -make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= -make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/nclextra /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/nclextra /build/iqtree-1.6.12+dfsg/build.mpi/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/whtest /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/whtest /build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/nclextra /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/nclextra /build/iqtree-1.6.12+dfsg/build.mpi/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/sprng /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/sprng /build/iqtree-1.6.12+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/vectorclass /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/vectorclass /build/iqtree-1.6.12+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/nclextra/CMakeFiles/nclextra.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/nclextra/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/nclextra/CMakeFiles/nclextra.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/sprng/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/gsl/CMakeFiles/gsl.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/gsl/CMakeFiles/gsl.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/gsl/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/gsl/CMakeFiles/gsl.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb/CMakeFiles/lbfgsb.dir/depend.internal". 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Scanning dependencies of target lbfgsb -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/sprng/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/depend.internal". -make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/vectorclass/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/depend.internal". +Scanning dependencies of target gsl make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build -Scanning dependencies of target vectorclass -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/ncl/CMakeFiles/ncl.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/ncl/CMakeFiles/ncl.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/ncl/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/ncl/CMakeFiles/ncl.dir/depend.internal". make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/CMakeFiles/kernelsse.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/CMakeFiles/kernelsse.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/CMakeFiles/kernelsse.dir/depend.internal". Scanning dependencies of target sprng +make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -Scanning dependencies of target nclextra make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/vectorclass/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/depend.internal". +Scanning dependencies of target vectorclass +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +Scanning dependencies of target nclextra make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build +make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' [ 0%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o [ 0%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o -[ 1%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o -[ 2%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/lbfgsb/lbfgsb_new.cpp cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/multinomial.cpp -[ 2%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o -[ 3%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/pow_int.cpp -[ 4%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o -Scanning dependencies of target ncl +[ 1%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o +[ 1%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/binomial_tpe.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/makeseed.c -cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gauss.cpp -[ 5%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/lcg64.c +Scanning dependencies of target kernelsse +[ 2%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build -[ 5%] Building C object sprng/CMakeFiles/sprng.dir/lcg64.c.o -[ 6%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gaussinv.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gausspdf.cpp +cd /build/iqtree-1.6.12+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/mpdablock.cpp +make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build +[ 3%] Building CXX object vectorclass/CMakeFiles/vectorclass.dir/instrset_detect.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/vectorclass && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/vectorclass/instrset_detect.cpp -[ 7%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/lcg64.c make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/memory.c -[ 8%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o -[ 8%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/mpdablock.cpp -[ 8%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msetsblock.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/store.c -Scanning dependencies of target whtest +[ 4%] 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-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylokernelsse.cpp +Scanning dependencies of target ncl make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build +make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -Scanning dependencies of target kernelsse +[ 5%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsassumptionsblock.cpp +Scanning dependencies of target whtest make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build +make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 9%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsassumptionsblock.cpp -[ 10%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o +[ 6%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 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CMakeFiles/whtest.dir/eigen_sym.c.o -c /build/iqtree-1.6.12+dfsg/whtest/eigen_sym.c +[ 6%] Linking CXX static library libvectorclass.a +cd /build/iqtree-1.6.12+dfsg/build.mpi/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+dfsg/build.mpi/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 +[ 7%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/pow_int.cpp +/usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o +/usr/bin/ranlib libvectorclass.a +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' Scanning dependencies of target pll -[ 11%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build -/usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylokernelsse.cpp +[ 7%] Built target vectorclass make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 11%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o +[ 8%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gauss.cpp +[ 8%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/alignment.c -[ 12%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/primes-lcg64.c -[ 12%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/checkid.c +[ 9%] Building C object sprng/CMakeFiles/sprng.dir/makeseed.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/makeseed.c In file included from /build/iqtree-1.6.12+dfsg/pll/alignment.c:40: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ +[ 10%] Building C object sprng/CMakeFiles/sprng.dir/memory.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/memory.c +[ 10%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gaussinv.cpp +[ 10%] Building C object sprng/CMakeFiles/sprng.dir/store.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/store.c +[ 11%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-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-1.6.12+dfsg/gsl/gausspdf.cpp +[ 12%] Building C object sprng/CMakeFiles/sprng.dir/primes-lcg64.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/primes-lcg64.c +[ 12%] Building C object sprng/CMakeFiles/sprng.dir/checkid.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/sprng/checkid.c [ 13%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/bipartitionList.c -[ 13%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsblock.cpp -[ 14%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxscharactersblock.cpp -[ 14%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluateGenericSpecial.c -[ 14%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/eigen_sym.c -[ 14%] Linking CXX static library libvectorclass.a -cd /build/iqtree-1.6.12+dfsg/build.mpi/vectorclass && /usr/bin/cmake -P CMakeFiles/vectorclass.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+dfsg/build.mpi/vectorclass && /usr/bin/cmake -E cmake_link_script CMakeFiles/vectorclass.dir/link.txt --verbose=1 -[ 15%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msplitsblock.cpp -[ 16%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o -/usr/bin/ar qc libvectorclass.a CMakeFiles/vectorclass.dir/instrset_detect.cpp.o +[ 14%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/random.c -/usr/bin/ranlib libvectorclass.a -[ 17%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/modelsblock.cpp -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +[ 14%] Linking CXX static library libgsl.a +cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/cmake -E cmake_link_script CMakeFiles/gsl.dir/link.txt --verbose=1 +[ 14%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msetsblock.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/bipartitionList.c:49: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 17%] Built target vectorclass In file included from /build/iqtree-1.6.12+dfsg/pll/bipartitionList.c:29: /build/iqtree-1.6.12+dfsg/pll/bipartitionList.c: In function 'insertHashRF': /build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] @@ -3508,31 +3567,34 @@ /build/iqtree-1.6.12+dfsg/pll/bipartitionList.c:332:3: note: in expansion of macro 'rax_posix_memalign' 332 | rax_posix_memalign ((void **)&(e->bitVector), PLL_BYTE_ALIGNMENT, (size_t)vectorLength * sizeof(unsigned int)); | ^~~~~~~~~~~~~~~~~~ -[ 18%] Linking C static library libsprng.a +/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-1.6.12+dfsg/build.mpi' +[ 14%] Built target gsl +[ 14%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsblock.cpp +[ 15%] Linking C static library libsprng.a cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cmake -P CMakeFiles/sprng.dir/cmake_clean_target.cmake -[ 18%] Linking CXX static library libgsl.a -cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake -[ 19%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/weisslambda.c cd /build/iqtree-1.6.12+dfsg/build.mpi/sprng && /usr/bin/cmake -E cmake_link_script CMakeFiles/sprng.dir/link.txt --verbose=1 -cd /build/iqtree-1.6.12+dfsg/build.mpi/gsl && /usr/bin/cmake -E cmake_link_script CMakeFiles/gsl.dir/link.txt --verbose=1 -In file included from /build/iqtree-1.6.12+dfsg/pll/evaluateGenericSpecial.c:46: -/build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined - 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); - | ^~~~~~~~~~~~~~~ /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/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 +[ 16%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/weisslambda.c /usr/bin/ranlib libsprng.a -/usr/bin/ranlib libgsl.a make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 19%] Built target sprng -[ 19%] Built target gsl -[ 19%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o +[ 16%] Built target sprng +[ 16%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o +[ 16%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/weisslambda_sub.c -[ 20%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluateGenericSpecial.c +[ 17%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/msplitsblock.cpp +In file included from /build/iqtree-1.6.12+dfsg/pll/evaluateGenericSpecial.c:46: +/build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined + 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); + | ^~~~~~~~~~~~~~~ +[ 18%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/whtest.c -[ 20%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o +[ 18%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/whtest/whtest_sub.c /build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c: In function 'ReadData': /build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c:205:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] @@ -3541,12 +3603,14 @@ /build/iqtree-1.6.12+dfsg/whtest/whtest_sub.c:221:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 221 | fscanf ( ifp, "%c", &c ); | ^~~~~~~~~~~~~~~~~~~~~~~~ +[ 19%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/whtest/whtest_wrapper.cpp +[ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxscharactersblock.cpp +[ 20%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdatablock.cpp [ 21%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c -[ 22%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/whtest/whtest_wrapper.cpp -[ 23%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/fastDNAparsimony.c In file included from /build/iqtree-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c:45: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); @@ -3576,6 +3640,10 @@ /build/iqtree-1.6.12+dfsg/pll/evaluatePartialGenericSpecial.c:936:3: note: in expansion of macro 'rax_posix_memalign' 936 | rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 80 * mxtips); | ^~~~~~~~~~~~~~~~~~ +[ 22%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretedatum.cpp +[ 23%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/fastDNAparsimony.c In file included from /build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:113: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); @@ -3592,26 +3660,53 @@ /build/iqtree-1.6.12+dfsg/pll/fastDNAparsimony.c:1768:3: note: in expansion of macro 'rax_posix_memalign' 1768 | rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); | ^~~~~~~~~~~~~~~~~~ -[ 23%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o +[ 24%] Linking CXX static library libwhtest.a +cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.mpi' +[ 24%] Built target whtest +[ 25%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretematrix.cpp +[ 26%] Linking CXX static library liblbfgsb.a +cd /build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.mpi' +[ 26%] Built target lbfgsb +[ 26%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/hardware.c -[ 24%] Building C object pll/CMakeFiles/pll.dir/hash.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/hash.c /build/iqtree-1.6.12+dfsg/pll/hardware.c: In function 'pll_probe_cpu': /build/iqtree-1.6.12+dfsg/pll/hardware.c:93:9: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 93 | fscanf (fd, "%d", &id); | ^~~~~~~~~~~~~~~~~~~~~~ -[ 24%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o +[ 27%] Building C object pll/CMakeFiles/pll.dir/hash.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/hash.c +[ 27%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/lexer.c -[ 25%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o +[ 28%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/nclextra && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/nclextra/modelsblock.cpp +[ 29%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/makenewzGenericSpecial.c -[ 26%] Building C object pll/CMakeFiles/pll.dir/models.c.o +[ 29%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancedatum.cpp +[ 30%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancesblock.cpp +make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend +[ 31%] Building C object pll/CMakeFiles/pll.dir/models.c.o +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/utils /build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/models.c +[ 31%] Building C object pll/CMakeFiles/pll.dir/newick.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/newick.c In file included from /build/iqtree-1.6.12+dfsg/pll/makenewzGenericSpecial.c:44: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 26%] Building C object pll/CMakeFiles/pll.dir/newick.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/newick.c +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/utils.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/utils.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/utils.dir/depend.internal". In file included from /build/iqtree-1.6.12+dfsg/pll/makenewzGenericSpecial.c:29: /build/iqtree-1.6.12+dfsg/pll/makenewzGenericSpecial.c: In function 'coreGTRCAT': /build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] @@ -3625,30 +3720,26 @@ /build/iqtree-1.6.12+dfsg/pll/makenewzGenericSpecial.c:3074:3: note: in expansion of macro 'rax_posix_memalign' 3074 | rax_posix_memalign ((void **)&d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 20 * sizeof(double)); | ^~~~~~~~~~~~~~~~~~ +Scanning dependencies of target utils +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build In file included from /build/iqtree-1.6.12+dfsg/pll/newick.c:36: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +[ 31%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/eigendecomposition.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/models.c:53: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 27%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o +[ 32%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/newviewGenericSpecial.c -[ 27%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdatablock.cpp -[ 27%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/genericParallelization.c -[ 28%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/optimizeModel.c In file included from /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c:49: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -In file included from /build/iqtree-1.6.12+dfsg/pll/genericParallelization.c:43: -/build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined - 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); - | ^~~~~~~~~~~~~~~ In file included from /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c:32: /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c: In function 'pllNewviewIterative': /build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] @@ -3661,8 +3752,6 @@ /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c:2792:17: note: in expansion of macro 'rax_posix_memalign' 2792 | rax_posix_memalign ((void **)&ex3, PLL_BYTE_ALIGNMENT, requiredExpLength); | ^~~~~~~~~~~~~~~~~~ -[ 29%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/parsePartition.c /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c: In function 'newviewAncestralIterative': /build/iqtree-1.6.12+dfsg/pll/mem_alloc.h:39:32: warning: ignoring return value of 'posix_memalign' declared with attribute 'warn_unused_result' [-Wunused-result] 39 | #define rax_posix_memalign posix_memalign @@ -3675,75 +3764,108 @@ /build/iqtree-1.6.12+dfsg/pll/newviewGenericSpecial.c:3800:3: note: in expansion of macro 'rax_posix_memalign' 3800 | rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof (double)); | ^~~~~~~~~~~~~~~~~~ +[ 32%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsemptyblock.cpp +[ 33%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsexception.cpp +[ 33%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/genericParallelization.c +In file included from /build/iqtree-1.6.12+dfsg/pll/genericParallelization.c:43: +/build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined + 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); + | ^~~~~~~~~~~~~~~ +[ 34%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsreader.cpp +[ 34%] Linking CXX static library libnclextra.a +cd /build/iqtree-1.6.12+dfsg/build.mpi/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+dfsg/build.mpi/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 +[ 35%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/optimizeModel.c +/usr/bin/ranlib libnclextra.a +[ 36%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/parsePartition.c In file included from /build/iqtree-1.6.12+dfsg/pll/optimizeModel.c:47: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 29%] Building C object pll/CMakeFiles/pll.dir/queue.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/queue.c +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +[ 36%] Built target nclextra +make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/pda /build/iqtree-1.6.12+dfsg/build.mpi/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= In file included from /build/iqtree-1.6.12+dfsg/pll/parsePartition.c:42: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 30%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/pda/CMakeFiles/pda.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/pda/CMakeFiles/pda.dir/depend.internal". +Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/pda/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/pda/CMakeFiles/pda.dir/depend.internal". +[ 37%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/gzstream.cpp +Scanning dependencies of target pda +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +[ 38%] Building CXX object pda/CMakeFiles/pda.dir/circularnetwork.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/circularnetwork.cpp +[ 38%] Building C object pll/CMakeFiles/pll.dir/queue.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/queue.c +[ 39%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/randomTree.c In file included from /build/iqtree-1.6.12+dfsg/pll/randomTree.c:37: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 30%] Building C object pll/CMakeFiles/pll.dir/recom.c.o +[ 39%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxssetreader.cpp +[ 39%] Building C object pll/CMakeFiles/pll.dir/recom.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/recom.c -[ 31%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/restartHashTable.c -[ 32%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/searchAlgo.c In file included from /build/iqtree-1.6.12+dfsg/pll/recom.c:43: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ +[ 40%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/restartHashTable.c +[ 41%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsstring.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/restartHashTable.c:47: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 32%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/ssort.c +[ 41%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/optimization.cpp +[ 42%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/searchAlgo.c In file included from /build/iqtree-1.6.12+dfsg/pll/searchAlgo.c:51: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 33%] Building C object pll/CMakeFiles/pll.dir/stack.c.o +[ 42%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/ssort.c +[ 43%] Building C object pll/CMakeFiles/pll.dir/stack.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/stack.c -[ 33%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o +[ 43%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstaxablock.cpp +[ 43%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/topologies.c -[ 34%] Building C object pll/CMakeFiles/pll.dir/trash.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/trash.c In file included from /build/iqtree-1.6.12+dfsg/pll/topologies.c:48: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 35%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/treeIO.c +[ 44%] Building C object pll/CMakeFiles/pll.dir/trash.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/trash.c In file included from /build/iqtree-1.6.12+dfsg/pll/trash.c:48: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -[ 36%] Linking CXX static library libwhtest.a -cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+dfsg/build.mpi/whtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/whtest.dir/link.txt --verbose=1 +[ 45%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/treeIO.c +[ 45%] Building C object pll/CMakeFiles/pll.dir/utils.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/utils.c In file included from /build/iqtree-1.6.12+dfsg/pll/treeIO.c:49: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); | ^~~~~~~~~~~~~~~ -/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-1.6.12+dfsg/build.mpi' -[ 36%] Building C object pll/CMakeFiles/pll.dir/utils.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pll/utils.c -[ 36%] Built target whtest -[ 37%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretedatum.cpp -[ 38%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdiscretematrix.cpp In file included from /build/iqtree-1.6.12+dfsg/pll/utils.c:70: /build/iqtree-1.6.12+dfsg/pll/pllInternal.h:150:30: warning: inline function 'bitcount_64_bit' declared but never defined 150 | extern __inline unsigned int bitcount_64_bit(uint64_t i); @@ -3806,158 +3928,95 @@ /build/iqtree-1.6.12+dfsg/pll/utils.c:748:11: note: in expansion of macro 'rax_posix_memalign' 748 | rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->gapColumn),PLL_BYTE_ALIGNMENT, ((size_t)localTree->mxtips) * | ^~~~~~~~~~~~~~~~~~ -[ 38%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancedatum.cpp -[ 39%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsdistancesblock.cpp -[ 39%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsemptyblock.cpp -[ 40%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsexception.cpp -[ 41%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsreader.cpp -[ 41%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxssetreader.cpp -[ 42%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxsstring.cpp -[ 42%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstaxablock.cpp -[ 43%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstoken.cpp -[ 44%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstreesblock.cpp -[ 45%] Linking CXX static library liblbfgsb.a -cd /build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.mpi' -[ 45%] Built target lbfgsb -make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/utils /build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/utils.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/utils.dir/depend.internal". -Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/utils.dir/depend.internal". -Scanning dependencies of target utils -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 45%] Building CXX object utils/CMakeFiles/utils.dir/eigendecomposition.cpp.o -[ 46%] Building CXX object utils/CMakeFiles/utils.dir/optimization.cpp.o -[ 46%] Building CXX object utils/CMakeFiles/utils.dir/gzstream.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/eigendecomposition.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/optimization.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/gzstream.cpp -[ 46%] Linking CXX static library libnclextra.a -cd /build/iqtree-1.6.12+dfsg/build.mpi/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake -[ 47%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o +[ 46%] Building CXX object utils/CMakeFiles/utils.dir/stoprule.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/stoprule.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/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-1.6.12+dfsg/build.mpi' -[ 47%] Built target nclextra -make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/pda 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-I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/circularnetwork.cpp -[ 49%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o +[ 47%] Building CXX object utils/CMakeFiles/utils.dir/tools.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/tools.cpp -[ 49%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/pllnni.cpp -[ 50%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/checkpoint.cpp -[ 50%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o +[ 47%] Building CXX object pda/CMakeFiles/pda.dir/greedy.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/greedy.cpp -[ 51%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o +[ 48%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstoken.cpp +[ 48%] Building CXX object utils/CMakeFiles/utils.dir/pllnni.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/pllnni.cpp +[ 49%] Building CXX object pda/CMakeFiles/pda.dir/gurobiwrapper.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/gurobiwrapper.cpp +[ 50%] Linking C static library libpll.a +cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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 +[ 51%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/ncl/nxstreesblock.cpp +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' [ 52%] Building CXX object pda/CMakeFiles/pda.dir/hashsplitset.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/hashsplitset.cpp -[ 52%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o +[ 52%] Built target pll +[ 53%] Building CXX object utils/CMakeFiles/utils.dir/checkpoint.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/checkpoint.cpp +[ 53%] Building CXX object pda/CMakeFiles/pda.dir/pdnetwork.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdnetwork.cpp -[ 52%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/MPIHelper.cpp -[ 53%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o +[ 54%] Building CXX object pda/CMakeFiles/pda.dir/pruning.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pruning.cpp -[ 53%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o +[ 54%] Building CXX object utils/CMakeFiles/utils.dir/MPIHelper.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/utils/MPIHelper.cpp +[ 54%] Building CXX object pda/CMakeFiles/pda.dir/split.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/split.cpp -[ 54%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o +[ 55%] Building CXX object pda/CMakeFiles/pda.dir/splitgraph.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/splitgraph.cpp -[ 55%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/splitset.cpp -[ 55%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pda/lpwrapper.c -[ 56%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp -pthread -m32 -D__SSE3 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-I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdtree.cpp -[ 57%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdtreeset.cpp -[ 58%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/ecopdmtreeset.cpp -[ 59%] Linking C static library libpll.a -cd /build/iqtree-1.6.12+dfsg/build.mpi/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.mpi' -[ 59%] Built target pll -[ 59%] Linking CXX static library libncl.a +[ 55%] Linking CXX static library libncl.a cd /build/iqtree-1.6.12+dfsg/build.mpi/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.mpi' -[ 59%] Built target ncl +[ 55%] Built target ncl make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/alignment /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/alignment /build/iqtree-1.6.12+dfsg/build.mpi/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/alignment/CMakeFiles/alignment.dir/DependInfo.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/alignment/CMakeFiles/alignment.dir/depend.internal". Dependee "/build/iqtree-1.6.12+dfsg/build.mpi/alignment/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/iqtree-1.6.12+dfsg/build.mpi/alignment/CMakeFiles/alignment.dir/depend.internal". +[ 56%] Building CXX object pda/CMakeFiles/pda.dir/splitset.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/splitset.cpp Scanning dependencies of target alignment make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 59%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o +[ 56%] Building CXX object alignment/CMakeFiles/alignment.dir/pattern.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/pattern.cpp -[ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o -[ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignmentpairwise.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignmentpairwiseplen.cpp -[ 62%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o -[ 62%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o -[ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o +[ 57%] Building CXX object alignment/CMakeFiles/alignment.dir/alignment.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/alignment.cpp -[ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o +[ 57%] Building CXX object alignment/CMakeFiles/alignment.dir/alignmentpairwise.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/alignmentpairwise.cpp +[ 57%] Building C object pda/CMakeFiles/pda.dir/lpwrapper.c.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/cc -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+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-1.6.12+dfsg/pda/lpwrapper.c +[ 58%] Building CXX object pda/CMakeFiles/pda.dir/ecopd.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/ecopd.cpp +[ 58%] Building CXX object pda/CMakeFiles/pda.dir/graph.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/graph.cpp +[ 59%] Building CXX object pda/CMakeFiles/pda.dir/pdtree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdtree.cpp +[ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/maalignment.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/maalignment.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignment.cpp +[ 60%] Building CXX object pda/CMakeFiles/pda.dir/pdtreeset.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/pdtreeset.cpp /build/iqtree-1.6.12+dfsg/alignment/alignment.cpp:2925:92: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 2925 | 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-1.6.12+dfsg/build.mpi/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.mpi' -[ 64%] Built target pda -[ 65%] Linking CXX static library libutils.a +[ 60%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignment.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignment.cpp +[ 61%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwise.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignmentpairwise.cpp +[ 62%] Building CXX object pda/CMakeFiles/pda.dir/ecopdmtreeset.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -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-1.6.12+dfsg/pda/ecopdmtreeset.cpp +[ 63%] Building CXX object alignment/CMakeFiles/alignment.dir/superalignmentpairwiseplen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/alignment/superalignmentpairwiseplen.cpp +[ 64%] Linking CXX static library libutils.a cd /build/iqtree-1.6.12+dfsg/build.mpi/utils && /usr/bin/cmake -P CMakeFiles/utils.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.12+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 make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 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-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/model /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/model /build/iqtree-1.6.12+dfsg/build.mpi/model/CMakeFiles/model.dir/DependInfo.cmake --color= @@ -3967,38 +4026,29 @@ make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 65%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o -[ 67%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o -[ 67%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o +[ 64%] Building CXX object model/CMakeFiles/model.dir/modelmarkov.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelmarkov.cpp -[ 67%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o -[ 67%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modeldna.cpp -[ 68%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o -[ 68%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o +[ 65%] Building CXX object model/CMakeFiles/model.dir/modelbin.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelbin.cpp +[ 66%] Building CXX object model/CMakeFiles/model.dir/modeldna.cpp.o +[ 65%] Building CXX object model/CMakeFiles/model.dir/modelfactory.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modeldna.cpp +[ 67%] Building CXX object model/CMakeFiles/model.dir/modelprotein.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelfactory.cpp -[ 69%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o +[ 67%] Building CXX object model/CMakeFiles/model.dir/modelset.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelprotein.cpp -[ 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-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelset.cpp -[ 71%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o +[ 68%] Linking CXX static library libpda.a +cd /build/iqtree-1.6.12+dfsg/build.mpi/pda && /usr/bin/cmake -P CMakeFiles/pda.dir/cmake_clean_target.cmake +cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.mpi' +[ 68%] Built target pda +[ 69%] Building CXX object model/CMakeFiles/model.dir/modelsubst.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelsubst.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodel.cpp -[ 72%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodelplen.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategammainvar.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategamma.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterogeneity.cpp -[ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratemeyerhaeseler.cpp -[ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o -[ 74%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratemeyerdiscrete.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateinvar.cpp -In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.h:23, - from /build/iqtree-1.6.12+dfsg/model/modeldna.cpp:20: +In file included from /build/iqtree-1.6.12+dfsg/model/modelprotein.h:23, + from /build/iqtree-1.6.12+dfsg/model/modelprotein.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4011,15 +4061,14 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.cpp:20: -/build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 91 | virtual void readRates(string str) throw(const char*); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modeldna.cpp:240:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 240 | void ModelDNA::readRates(string str) throw(const char*) { +In file included from /build/iqtree-1.6.12+dfsg/model/modelprotein.cpp:20: +/build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 69 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelset.h:23, - from /build/iqtree-1.6.12+dfsg/model/modelset.cpp:20: +/build/iqtree-1.6.12+dfsg/model/modelprotein.cpp:651:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 651 | void ModelProtein::readRates(istream &in) throw(const char*, string) { + | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:24: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4032,8 +4081,20 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelprotein.h:23, - from /build/iqtree-1.6.12+dfsg/model/modelprotein.cpp:20: +In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:26: +/build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 91 | virtual void readRates(string str) throw(const char*); + | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:27: +/build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 69 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:30: +/build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 78 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/model/modelbin.h:23, + from /build/iqtree-1.6.12+dfsg/model/modelbin.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4046,12 +4107,8 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelprotein.cpp:20: -/build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 69 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelbin.h:23, - from /build/iqtree-1.6.12+dfsg/model/modelbin.cpp:20: +In file included from /build/iqtree-1.6.12+dfsg/model/modelset.h:23, + from /build/iqtree-1.6.12+dfsg/model/modelset.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4064,10 +4121,8 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelprotein.cpp:651:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 651 | void ModelProtein::readRates(istream &in) throw(const char*, string) { - | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:24: +In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.h:23, + from /build/iqtree-1.6.12+dfsg/model/modeldna.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4080,17 +4135,12 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:26: +In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.cpp:20: /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:27: -/build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 69 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelfactory.cpp:30: -/build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 78 | virtual void readRates(istream &in) throw(const char*, string); +/build/iqtree-1.6.12+dfsg/model/modeldna.cpp:240:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 240 | void ModelDNA::readRates(string str) throw(const char*) { | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -4105,14 +4155,10 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 74%] Building CXX object model/CMakeFiles/model.dir/ratekategory.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratekategory.cpp -[ 75%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratefree.cpp -[ 76%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o -[ 76%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratefreeinvar.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterotachy.cpp +[ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodel.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodel.cpp +[ 70%] Building CXX object model/CMakeFiles/model.dir/partitionmodelplen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/partitionmodelplen.cpp /build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:997:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 997 | void ModelMarkov::readRates(istream &in) throw(const char*, string) { | ^~~~~ @@ -4125,8 +4171,42 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.cpp:1095:45: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 1095 | void ModelMarkov::readStateFreq(string str) throw(const char*) { | ^~~~~ +[ 71%] Building CXX object model/CMakeFiles/model.dir/rategamma.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategamma.cpp +[ 71%] Building CXX object model/CMakeFiles/model.dir/rategammainvar.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rategammainvar.cpp +[ 72%] Building CXX object model/CMakeFiles/model.dir/rateheterogeneity.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterogeneity.cpp +[ 73%] Building CXX object model/CMakeFiles/model.dir/rateinvar.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateinvar.cpp +[ 73%] Building CXX object model/CMakeFiles/model.dir/ratemeyerdiscrete.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratemeyerdiscrete.cpp +[ 74%] Building CXX object model/CMakeFiles/model.dir/ratemeyerhaeseler.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratemeyerhaeseler.cpp +[ 74%] Building CXX object model/CMakeFiles/model.dir/ratekategory.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratekategory.cpp +[ 75%] Building CXX object model/CMakeFiles/model.dir/ratefree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratefree.cpp +[ 76%] Building CXX object model/CMakeFiles/model.dir/ratefreeinvar.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/ratefreeinvar.cpp +[ 76%] Building CXX object model/CMakeFiles/model.dir/rateheterotachy.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterotachy.cpp [ 77%] Building CXX object model/CMakeFiles/model.dir/rateheterotachyinvar.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/rateheterotachyinvar.cpp +In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, + from /build/iqtree-1.6.12+dfsg/model/ratefree.cpp:13: +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 142 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 149 | virtual void readRates(string str) throw(const char*); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 156 | virtual void readStateFreq(istream &in) throw(const char*); + | ^~~~~ +/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 163 | virtual void readStateFreq(string str) throw(const char*); + | ^~~~~ [ 77%] Building CXX object model/CMakeFiles/model.dir/modelcodon.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelcodon.cpp [ 78%] Building CXX object model/CMakeFiles/model.dir/modelmorphology.cpp.o @@ -4137,12 +4217,8 @@ cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelunrest.cpp [ 80%] Building CXX object model/CMakeFiles/model.dir/modelliemarkov.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelliemarkov.cpp -[ 80%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomo.cpp -[ 81%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomomixture.cpp -In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, - from /build/iqtree-1.6.12+dfsg/model/ratefree.cpp:13: +In file included from /build/iqtree-1.6.12+dfsg/model/modelcodon.h:11, + from /build/iqtree-1.6.12+dfsg/model/modelcodon.cpp:8: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4155,10 +4231,8 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 81%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelfactorymixlen.cpp -In file included from /build/iqtree-1.6.12+dfsg/model/modelcodon.h:11, - from /build/iqtree-1.6.12+dfsg/model/modelcodon.cpp:8: +In file included from /build/iqtree-1.6.12+dfsg/model/modelunrest.h:11, + from /build/iqtree-1.6.12+dfsg/model/modelunrest.cpp:8: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4171,6 +4245,12 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +[ 80%] Building CXX object model/CMakeFiles/model.dir/modelpomo.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomo.cpp +[ 81%] Building CXX object model/CMakeFiles/model.dir/modelpomomixture.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelpomomixture.cpp +[ 81%] Building CXX object model/CMakeFiles/model.dir/modelfactorymixlen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/model && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/model/modelfactorymixlen.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelmorphology.h:11, from /build/iqtree-1.6.12+dfsg/model/modelmorphology.cpp:8: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -4217,24 +4297,9 @@ /build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 78 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelunrest.h:11, - from /build/iqtree-1.6.12+dfsg/model/modelunrest.cpp:8: -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 142 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:149:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 149 | virtual void readRates(string str) throw(const char*); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:156:42: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 156 | virtual void readStateFreq(istream &in) throw(const char*); - | ^~~~~ -/build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 163 | virtual void readStateFreq(string str) throw(const char*); - | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.12+dfsg/model/modelpomo.h:4, - from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.h:14, - from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.cpp:9: + from /build/iqtree-1.6.12+dfsg/model/modelpomo.cpp:1: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4248,14 +4313,14 @@ 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelpomo.h:4, - from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.h:14, - from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.cpp:9: + from /build/iqtree-1.6.12+dfsg/model/modelpomo.cpp:1: /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modeldna.h:23, from /build/iqtree-1.6.12+dfsg/model/modelpomo.h:4, - from /build/iqtree-1.6.12+dfsg/model/modelpomo.cpp:1: + from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.h:14, + from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.cpp:9: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4269,11 +4334,15 @@ 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/model/modelpomo.h:4, - from /build/iqtree-1.6.12+dfsg/model/modelpomo.cpp:1: + from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.h:14, + from /build/iqtree-1.6.12+dfsg/model/modelpomomixture.cpp:9: /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelfactorymixlen.cpp:12: +[ 81%] Linking CXX static library libalignment.a +cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/cmake -P CMakeFiles/alignment.dir/cmake_clean_target.cmake +In file included from /build/iqtree-1.6.12+dfsg/model/modelliemarkov.h:11, + from /build/iqtree-1.6.12+dfsg/model/modelliemarkov.cpp:25: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4286,8 +4355,8 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/model/modelliemarkov.h:11, - from /build/iqtree-1.6.12+dfsg/model/modelliemarkov.cpp:25: +cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/alignment.dir/link.txt --verbose=1 +In file included from /build/iqtree-1.6.12+dfsg/model/modelfactorymixlen.cpp:12: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4300,9 +4369,6 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 81%] Linking CXX static library libalignment.a -cd /build/iqtree-1.6.12+dfsg/build.mpi/alignment && /usr/bin/cmake -P CMakeFiles/alignment.dir/cmake_clean_target.cmake -cd /build/iqtree-1.6.12+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-1.6.12+dfsg/build.mpi' @@ -4330,43 +4396,27 @@ make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 84%] Building CXX object tree/CMakeFiles/tree.dir/constrainttree.cpp.o -[ 84%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o -[ 85%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/constrainttree.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/candidateset.cpp -[ 85%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o -[ 86%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o -[ 86%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o -[ 86%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/iqtree.cpp -[ 87%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o +[ 83%] Building CXX object tree/CMakeFiles/tree.dir/matree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/matree.cpp +[ 85%] Building CXX object tree/CMakeFiles/tree.dir/memslot.cpp.o +[ 84%] Building CXX object tree/CMakeFiles/tree.dir/mtree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS 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-fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/mtree.cpp +[ 87%] Building CXX object tree/CMakeFiles/tree.dir/candidateset.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/constrainttree.cpp +[ 88%] Building CXX object tree/CMakeFiles/tree.dir/iqtree.cpp.o [ 88%] Building CXX object tree/CMakeFiles/tree.dir/ncbitree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/candidateset.cpp +[ 88%] Building CXX object tree/CMakeFiles/tree.dir/mexttree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/iqtree.cpp cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/mexttree.cpp -[ 89%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o -[ 89%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o -[ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/mtree.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertreeplen.cpp cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/mtreeset.cpp -[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o +[ 89%] Building CXX object tree/CMakeFiles/tree.dir/node.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/ncbitree.cpp -[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/node.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonode.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonodemixlen.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertree.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotree.cpp -[ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreepars.cpp -[ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o -[ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreemixlen.cpp -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreesse.cpp -In file included from /build/iqtree-1.6.12+dfsg/tree/phylotreesse.cpp:35: +In file included from /build/iqtree-1.6.12+dfsg/tree/iqtree.cpp:29: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4379,6 +4429,22 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ +[ 89%] Building CXX object tree/CMakeFiles/tree.dir/phylonode.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonode.cpp +[ 90%] Building CXX object tree/CMakeFiles/tree.dir/phylonodemixlen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylonodemixlen.cpp +[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertree.cpp +[ 91%] Building CXX object tree/CMakeFiles/tree.dir/phylosupertreeplen.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylosupertreeplen.cpp +[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotreemixlen.cpp.o +[ 92%] Building CXX object tree/CMakeFiles/tree.dir/phylotree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreemixlen.cpp +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotree.cpp +[ 93%] Building CXX object tree/CMakeFiles/tree.dir/phylotreepars.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreepars.cpp +[ 94%] Building CXX object tree/CMakeFiles/tree.dir/phylotreesse.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/phylotreesse.cpp In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, from /build/iqtree-1.6.12+dfsg/tree/phylotreemixlen.cpp:12: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] @@ -4393,7 +4459,8 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/tree/iqtree.cpp:29: +In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, + from /build/iqtree-1.6.12+dfsg/tree/phylotree.cpp:34: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4406,12 +4473,7 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 94%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/quartet.cpp -[ 95%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/supernode.cpp -In file included from /build/iqtree-1.6.12+dfsg/model/modelmixture.h:13, - from /build/iqtree-1.6.12+dfsg/tree/phylotree.cpp:34: +In file included from /build/iqtree-1.6.12+dfsg/tree/phylotreesse.cpp:35: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4424,14 +4486,18 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -[ 95%] Building CXX object tree/CMakeFiles/tree.dir/tinatree.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/tinatree.cpp -[ 96%] Building CXX object tree/CMakeFiles/tree.dir/parstree.cpp.o -cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/parstree.cpp /build/iqtree-1.6.12+dfsg/tree/phylotree.cpp: In member function 'virtual int PhyloTree::getNumLhCat(SiteLoglType)': /build/iqtree-1.6.12+dfsg/tree/phylotree.cpp:1202:1: warning: control reaches end of non-void function [-Wreturn-type] 1202 | } | ^ +[ 94%] Building CXX object tree/CMakeFiles/tree.dir/quartet.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/quartet.cpp +[ 95%] Building CXX object tree/CMakeFiles/tree.dir/supernode.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/supernode.cpp +[ 95%] Building CXX object tree/CMakeFiles/tree.dir/tinatree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/tinatree.cpp +[ 96%] Building CXX object tree/CMakeFiles/tree.dir/parstree.cpp.o +cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/tree/parstree.cpp [ 97%] Linking CXX static library libtree.a cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/cmake -P CMakeFiles/tree.dir/cmake_clean_target.cmake cd /build/iqtree-1.6.12+dfsg/build.mpi/tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/tree.dir/link.txt --verbose=1 @@ -4448,13 +4514,13 @@ make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make -f CMakeFiles/iqtree.dir/build.make CMakeFiles/iqtree.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 98%] Building CXX object CMakeFiles/iqtree.dir/main/main.cpp.o -[ 99%] Building CXX object CMakeFiles/iqtree.dir/main/phyloanalysis.cpp.o -[ 99%] Building CXX object CMakeFiles/iqtree.dir/main/phylotesting.cpp.o -/usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/main.cpp -[100%] Building CXX object CMakeFiles/iqtree.dir/obsolete/parsmultistate.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-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/phyloanalysis.cpp +[ 98%] Building CXX object CMakeFiles/iqtree.dir/main/phylotesting.cpp.o /usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/phylotesting.cpp +[ 99%] Building CXX object CMakeFiles/iqtree.dir/main/main.cpp.o +/usr/bin/c++ -DBINARY32 -DIQ_TREE -D_IQTREE_MPI -D_USE_PTHREADS -I/build/iqtree-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/main/main.cpp +[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-1.6.12+dfsg -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/iqtree-1.6.12+dfsg/build.mpi -g -O2 -fdebug-prefix-map=/build/iqtree-1.6.12+dfsg=. -fstack-protector-strong -Wformat -Werror=format-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-1.6.12+dfsg/obsolete/parsmultistate.cpp /build/iqtree-1.6.12+dfsg/main/main.cpp:232:58: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 232 | out << " " << 8*sizeof(void*) << "-bit" << " built " << __DATE__; @@ -4462,7 +4528,7 @@ /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:862:52: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 862 | << "." << iqtree_VERSION_PATCH << " built " << __DATE__ << endl | ^~~~~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:20: +In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:35: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4475,15 +4541,15 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:21: +In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:36: /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:30: +In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:44: /build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 69 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:35: +In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:20: /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:142:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 142 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ @@ -4496,18 +4562,18 @@ /build/iqtree-1.6.12+dfsg/model/modelmarkov.h:163:41: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 163 | virtual void readStateFreq(string str) throw(const char*); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:36: +In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:21: /build/iqtree-1.6.12+dfsg/model/modeldna.h:91:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 91 | virtual void readRates(string str) throw(const char*); | ^~~~~ +In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:30: +/build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] + 69 | virtual void readRates(istream &in) throw(const char*, string); + | ^~~~~ In file included from /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:33: /build/iqtree-1.6.12+dfsg/model/modelmorphology.h:78:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 78 | virtual void readRates(istream &in) throw(const char*, string); | ^~~~~ -In file included from /build/iqtree-1.6.12+dfsg/main/phyloanalysis.cpp:44: -/build/iqtree-1.6.12+dfsg/model/modelprotein.h:69:38: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] - 69 | virtual void readRates(istream &in) throw(const char*, string); - | ^~~~~ /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp: In function 'std::string getSeqTypeName(SeqType)': /build/iqtree-1.6.12+dfsg/main/phylotesting.cpp:164:1: warning: control reaches end of non-void function [-Wreturn-type] 164 | } @@ -4531,346 +4597,282 @@ echo 'time /build/iqtree-1.6.12+dfsg/build.omp/iqtree-omp -s example.phy -omp 2 -redo' >> example.short time sh example.short Executing tests using /build/iqtree-1.6.12+dfsg/build.omp/iqtree-omp ... -+ time /build/iqtree-1.6.12+dfsg/build.omp/iqtree-omp -s example.phy ++ /build/iqtree-1.6.12+dfsg/build.omp/iqtree-omp -s example.phy IQ-TREE multicore version 1.6.12 for Linux 32-bit built Dec 4 2019 Developed by Bui Quang Minh, Nguyen Lam Tung, Olga Chernomor, Heiko Schmidt, Dominik Schrempf, Michael Woodhams. -Host: ionos16-i386 (SSE4.2, 35 GB RAM) +Host: i-capture-the-hostname (SSE4.2, 35 GB RAM) Command: /build/iqtree-1.6.12+dfsg/build.omp/iqtree-omp -s example.phy -Seed: 951162 (Using SPRNG - Scalable Parallel Random Number Generator) -Time: Wed Jun 29 00:05:17 2022 -Kernel: SSE2 - 1 threads (18 CPU cores detected) +Seed: 345940 (Using SPRNG - Scalable Parallel Random Number Generator) +Time: Thu May 27 19:59:37 2021 +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)... 0.006 seconds -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 11912.566 85 23995.131 24044.191 24330.936 - 2 JC+I 11659.889 86 23491.778 23542.162 23831.534 - 3 JC+G4 11385.895 86 22943.790 22994.173 23283.545 - 4 JC+I+G4 11366.818 87 22907.635 22959.365 23251.341 - 5 JC+R2 11479.523 87 23133.046 23184.775 23476.752 - 6 JC+R3 11373.187 89 22924.375 22978.865 23275.982 - 7 JC+R4 11361.103 91 22904.207 22961.549 23263.715 - 8 JC+R5 11360.966 93 22907.932 22968.221 23275.342 - 14 F81+F 11915.634 88 24007.268 24060.366 24354.925 - 15 F81+F+I 11659.637 89 23497.274 23551.764 23848.881 - 16 F81+F+G4 11380.931 89 22939.862 22994.352 23291.469 - 17 F81+F+I+G4 11362.024 90 22904.048 22959.952 23259.606 - 18 F81+F+R2 11476.590 90 23133.181 23189.085 23488.739 - 19 F81+F+R3 11364.142 92 22912.284 22971.088 23275.743 - 20 F81+F+R4 11356.169 94 22900.337 22962.137 23271.698 - 21 F81+F+R5 11356.154 96 22904.309 22969.201 23283.570 - 27 K2P 11874.700 86 23921.399 23971.783 24261.155 - 28 K2P+I 11621.287 87 23416.573 23468.303 23760.279 - 29 K2P+G4 11343.265 87 22860.530 22912.259 23204.236 - 30 K2P+I+G4 11324.732 88 22825.465 22878.563 23173.121 - 31 K2P+R2 11439.677 88 23055.354 23108.452 23403.010 - 32 K2P+R3 11326.355 90 22832.711 22888.615 23188.268 - 33 K2P+R4 11318.416 92 22820.832 22879.636 23184.291 - 34 K2P+R5 11318.313 94 22824.626 22886.425 23195.986 - 40 HKY+F 11877.231 89 23932.462 23986.952 24284.069 - 41 HKY+F+I 11619.641 90 23419.282 23475.187 23774.840 - 42 HKY+F+G4 11335.874 90 22851.748 22907.652 23207.306 - 43 HKY+F+I+G4 11317.536 91 22817.071 22874.414 23176.580 - 44 HKY+F+R2 11434.764 91 23051.528 23108.870 23411.036 - 45 HKY+F+R3 11319.981 93 22825.961 22886.251 23193.371 - 46 HKY+F+R4 11311.220 95 22812.440 22875.773 23187.751 - 47 HKY+F+R5 11311.163 97 22816.326 22882.802 23199.539 - 53 TNe 11874.227 87 23922.454 23974.183 24266.160 - 54 TNe+I 11616.399 88 23408.798 23461.896 23756.454 - 55 TNe+G4 11342.242 88 22860.484 22913.582 23208.141 - 56 TNe+I+G4 11323.049 89 22824.098 22878.588 23175.705 - 57 TNe+R2 11439.024 89 23056.048 23110.538 23407.655 - 58 TNe+R3 11322.819 91 22827.638 22884.981 23187.147 - 59 TNe+R4 11315.486 93 22816.972 22877.261 23184.381 - 60 TNe+R5 11315.417 95 22820.834 22884.167 23196.145 - 66 TN+F 11876.686 90 23933.373 23989.277 24288.931 - 67 TN+F+I 11614.039 91 23410.078 23467.421 23769.587 - 68 TN+F+G4 11334.319 91 22850.637 22907.980 23210.146 - 69 TN+F+I+G4 11315.162 92 22814.324 22873.129 23177.784 - 70 TN+F+R2 11433.772 92 23051.543 23110.347 23415.002 - 71 TN+F+R3 11315.669 94 22819.337 22881.137 23190.698 - 72 TN+F+R4 11307.480 96 22806.960 22871.852 23186.222 - 73 TN+F+R5 11307.442 98 22810.884 22878.968 23198.047 - 79 K3P 11853.495 87 23880.990 23932.719 24224.696 - 80 K3P+I 11599.665 88 23375.330 23428.428 23722.986 - 81 K3P+G4 11326.708 88 22829.415 22882.513 23177.072 - 82 K3P+I+G4 11307.364 89 22792.728 22847.218 23144.336 - 83 K3P+R2 11418.686 89 23015.373 23069.862 23366.980 - 84 K3P+R3 11307.150 91 22796.301 22853.643 23155.809 - 85 K3P+R4 11299.676 93 22785.352 22845.642 23152.762 - 86 K3P+R5 11299.658 95 22789.316 22852.649 23164.627 - 92 K3Pu+F 11856.077 90 23892.154 23948.058 24247.712 - 93 K3Pu+F+I 11598.105 91 23378.210 23435.552 23737.718 - 94 K3Pu+F+G4 11320.114 91 22822.228 22879.571 23181.737 - 95 K3Pu+F+I+G4 11300.915 92 22785.830 22844.634 23149.289 - 96 K3Pu+F+R2 11414.158 92 23012.316 23071.121 23375.776 - 97 K3Pu+F+R3 11301.554 94 22791.108 22852.907 23162.469 - 98 K3Pu+F+R4 11293.160 96 22778.320 22843.212 23157.581 - 99 K3Pu+F+R5 11293.138 98 22782.275 22850.360 23169.438 -105 TPM2+F 11877.146 90 23934.292 23990.197 24289.850 -106 TPM2+F+I 11619.417 91 23420.834 23478.177 23780.343 -107 TPM2+F+G4 11335.477 91 22852.954 22910.297 23212.463 -108 TPM2+F+I+G4 11317.200 92 22818.400 22877.204 23181.859 -109 TPM2+F+R2 11434.608 92 23053.217 23112.021 23416.676 -110 TPM2+F+R3 11318.597 94 22825.195 22886.994 23196.555 -111 TPM2+F+R4 11309.408 96 22810.817 22875.709 23190.078 -112 TPM2+F+R5 11309.396 98 22814.791 22882.875 23201.954 -118 TPM2u+F 11877.146 90 23934.291 23990.196 24289.849 -119 TPM2u+F+I 11619.417 91 23420.835 23478.177 23780.343 -120 TPM2u+F+G4 11335.477 91 22852.953 22910.296 23212.462 -121 TPM2u+F+I+G4 11317.202 92 22818.404 22877.208 23181.863 -122 TPM2u+F+R2 11434.612 92 23053.225 23112.029 23416.684 -123 TPM2u+F+R3 11318.595 94 22825.190 22886.989 23196.550 -124 TPM2u+F+R4 11309.392 96 22810.784 22875.676 23190.046 -125 TPM2u+F+R5 11309.380 98 22814.759 22882.843 23201.922 -131 TPM3+F 11840.659 90 23861.319 23917.223 24216.877 -132 TPM3+F+I 11604.676 91 23391.353 23448.695 23750.861 -133 TPM3+F+G4 11330.209 91 22842.419 22899.761 23201.927 -134 TPM3+F+I+G4 11312.847 92 22809.693 22868.497 23173.152 -135 TPM3+F+R2 11426.764 92 23037.527 23096.331 23400.986 -136 TPM3+F+R3 11312.043 94 22812.085 22873.884 23183.445 -137 TPM3+F+R4 11304.518 96 22801.037 22865.928 23180.298 -138 TPM3+F+R5 11304.517 98 22805.034 22873.118 23192.196 -144 TPM3u+F 11840.659 90 23861.319 23917.223 24216.877 -145 TPM3u+F+I 11604.676 91 23391.353 23448.695 23750.861 -146 TPM3u+F+G4 11330.210 91 22842.420 22899.763 23201.929 -147 TPM3u+F+I+G4 11312.847 92 22809.694 22868.498 23173.153 -148 TPM3u+F+R2 11426.740 92 23037.480 23096.284 23400.939 -149 TPM3u+F+R3 11312.042 94 22812.084 22873.883 23183.444 -150 TPM3u+F+R4 11304.511 96 22801.023 22865.915 23180.284 -151 TPM3u+F+R5 11304.507 98 22805.013 22873.097 23192.176 -157 TIMe 11853.021 88 23882.042 23935.141 24229.699 -158 TIMe+I 11594.771 89 23367.542 23422.032 23719.149 -159 TIMe+G4 11325.692 89 22829.383 22883.873 23180.991 -160 TIMe+I+G4 11305.692 90 22791.384 22847.289 23146.942 -161 TIMe+R2 11418.048 90 23016.097 23072.001 23371.655 -162 TIMe+R3 11303.843 92 22791.687 22850.491 23155.146 -163 TIMe+R4 11297.177 94 22782.353 22844.153 23153.714 -164 TIMe+R5 11297.162 96 22786.325 22851.217 23165.587 -170 TIM+F 11855.533 91 23893.065 23950.408 24252.574 -171 TIM+F+I 11592.513 92 23369.026 23427.830 23732.485 -172 TIM+F+G4 11318.589 92 22821.177 22879.981 23184.636 -173 TIM+F+I+G4 11298.574 93 22783.148 22843.437 23150.557 -174 TIM+F+R2 11413.092 93 23012.185 23072.475 23379.595 -175 TIM+F+R3 11297.415 95 22784.829 22848.162 23160.140 -176 TIM+F+R4 11289.857 97 22773.713 22840.189 23156.926 -177 TIM+F+R5 11289.848 99 22777.697 22847.415 23168.810 -183 TIM2e 11874.094 88 23924.187 23977.286 24271.844 -184 TIM2e+I 11616.114 89 23410.228 23464.718 23761.835 -185 TIM2e+G4 11342.016 89 22862.033 22916.523 23213.640 -186 TIM2e+I+G4 11322.875 90 22825.750 22881.655 23181.308 -187 TIM2e+R2 11438.970 90 23057.941 23113.845 23413.499 -188 TIM2e+R3 11321.595 92 22827.191 22885.995 23190.650 -189 TIM2e+R4 11314.067 94 22816.134 22877.933 23187.494 -190 TIM2e+R5 11314.058 96 22820.117 22885.009 23199.379 -196 TIM2+F 11876.604 91 23935.207 23992.550 24294.716 -197 TIM2+F+I 11613.830 92 23411.659 23470.463 23775.118 -198 TIM2+F+G4 11333.935 92 22851.870 22910.674 23215.329 -199 TIM2+F+I+G4 11314.853 93 22815.705 22875.995 23183.115 -200 TIM2+F+R2 11433.637 93 23053.275 23113.565 23420.685 -201 TIM2+F+R3 11314.509 95 22819.017 22882.351 23194.328 -202 TIM2+F+R4 11305.979 97 22805.959 22872.434 23189.171 -203 TIM2+F+R5 11305.961 99 22809.923 22879.641 23201.036 -209 TIM3e 11828.787 88 23833.575 23886.673 24181.231 -210 TIM3e+I 11595.355 89 23368.710 23423.200 23720.317 -211 TIM3e+G4 11331.800 89 22841.600 22896.090 23193.207 -212 TIM3e+I+G4 11313.990 90 22807.979 22863.884 23163.537 -213 TIM3e+R2 11425.429 90 23030.858 23086.762 23386.415 -214 TIM3e+R3 11309.847 92 22803.694 22862.498 23167.153 -215 TIM3e+R4 11304.176 94 22796.352 22858.152 23167.713 -222 TIM3+F 11839.952 91 23861.905 23919.247 24221.413 -223 TIM3+F+I 11599.086 92 23382.172 23440.977 23745.632 -224 TIM3+F+G4 11328.549 92 22841.098 22899.902 23204.557 -225 TIM3+F+I+G4 11310.405 93 22806.810 22867.100 23174.220 -226 TIM3+F+R2 11425.794 93 23037.588 23097.877 23404.997 -227 TIM3+F+R3 11307.863 95 22805.725 22869.059 23181.036 -228 TIM3+F+R4 11300.800 97 22795.600 22862.076 23178.813 -229 TIM3+F+R5 11300.781 99 22799.563 22869.281 23190.677 -235 TVMe 11807.354 89 23792.707 23847.197 24144.315 -236 TVMe+I 11577.825 90 23335.650 23391.555 23691.208 -237 TVMe+G4 11313.878 90 22807.756 22863.661 23163.314 -238 TVMe+I+G4 11296.114 91 22774.227 22831.569 23133.736 -239 TVMe+R2 11404.255 91 22990.510 23047.852 23350.018 -240 TVMe+R3 11293.640 93 22773.279 22833.569 23140.689 -241 TVMe+R4 11288.350 95 22766.701 22830.034 23142.012 -248 TVM+F 11818.566 92 23821.132 23879.936 24184.591 -249 TVM+F+I 11582.327 93 23350.653 23410.943 23718.063 -250 TVM+F+G4 11311.673 93 22809.346 22869.635 23176.756 -251 TVM+F+I+G4 11293.643 94 22775.286 22837.085 23146.646 -252 TVM+F+R2 11404.990 94 22997.979 23059.779 23369.340 -253 TVM+F+R3 11292.899 96 22777.799 22842.691 23157.060 -254 TVM+F+R4 11286.261 98 22768.522 22836.606 23155.685 -255 TVM+F+R5 11286.240 100 22772.480 22843.858 23167.544 -261 SYM 11806.716 90 23793.432 23849.336 24148.990 -262 SYM+I 11572.954 91 23327.907 23385.250 23687.416 -263 SYM+G4 11312.647 91 22807.294 22864.637 23166.803 -264 SYM+I+G4 11294.284 92 22772.568 22831.372 23136.027 -265 SYM+R2 11403.561 92 22991.122 23049.926 23354.581 -266 SYM+R3 11290.136 94 22768.272 22830.072 23139.633 -267 SYM+R4 11285.371 96 22762.741 22827.633 23142.003 -274 GTR+F 11817.853 93 23821.707 23881.996 24189.116 -275 GTR+F+I 11576.719 94 23341.438 23403.237 23712.798 -276 GTR+F+G4 11310.031 94 22808.062 22869.861 23179.422 -277 GTR+F+I+G4 11291.245 95 22772.489 22835.823 23147.801 -278 GTR+F+R2 11404.058 95 22998.115 23061.449 23373.426 -279 GTR+F+R3 11288.676 97 22771.351 22837.827 23154.564 -280 GTR+F+R4 11282.635 99 22763.271 22832.989 23154.384 -281 GTR+F+R5 11282.621 101 22767.242 22840.306 23166.257 -Akaike Information Criterion: SYM+R4 -Corrected Akaike Information Criterion: SYM+R4 -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 22284.450 33 44634.900 44636.043 44819.697 + 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 44106.206 44107.719 44319.003 + 20 F81+F+R4 22015.030 40 44110.060 44111.736 44334.056 + 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 21827.581 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 43831.161 + 58 TNe+R3 21712.362 37 43498.724 43500.158 43705.920 + 59 TNe+R4 21712.298 39 43502.597 43504.190 43720.993 + 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 42838.422 43044.184 + 69 TN+F+I+G4 21372.251 38 42820.501 42822.014 43033.298 + 70 TN+F+R2 21468.252 38 43012.503 43014.016 43225.299 + 71 TN+F+R3 21369.063 40 42818.125 42819.801 43042.121 + 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 21837.968 35 43745.935 43747.220 43941.932 + 83 K3P+R2 21896.658 35 43863.317 43864.601 44059.314 + 84 K3P+R3 21827.462 37 43728.923 43730.358 43936.120 + 85 K3P+R4 21827.429 39 43732.858 43734.452 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 21471.092 40 43022.184 43023.860 43246.180 + 98 K3Pu+F+R4 21471.067 42 43026.134 43027.981 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 21311.672 37 42697.345 42698.780 42904.541 +108 TPM2+F+I+G4 21298.849 38 42673.698 42675.211 42886.494 +109 TPM2+F+R2 21369.634 38 42815.269 42816.782 43028.065 +110 TPM2+F+R3 21290.293 40 42660.587 42662.263 42884.583 +111 TPM2+F+R4 21290.281 42 42664.562 42666.410 42899.758 +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 42673.665 42675.178 42886.461 +122 TPM2u+F+R2 21369.633 38 42815.267 42816.780 43028.063 +123 TPM2u+F+R3 21290.290 40 42660.581 42662.257 42884.577 +124 TPM2u+F+R4 21290.290 42 42664.580 42666.428 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 21470.759 40 43021.518 43023.194 43245.514 +137 TPM3+F+R4 21470.699 42 43025.399 43027.246 43260.594 +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 43248.589 43250.102 43461.386 +149 TPM3u+F+R3 21470.771 40 43021.542 43023.218 43245.538 +150 TPM3u+F+R4 21470.686 42 43025.373 43027.220 43260.568 +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 43500.524 43502.037 43713.320 +163 TIMe+R4 21712.218 40 43504.436 43506.112 43728.432 +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 21381.147 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 43014.330 43231.132 +175 TIM+F+R3 21368.698 41 42819.396 42821.157 43048.992 +176 TIM+F+R4 21368.667 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 42844.325 43044.563 +188 TIM2e+R3 21311.770 38 42699.541 42701.054 42912.337 +189 TIM2e+R4 21311.621 40 42703.242 42704.918 42927.238 +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 42633.293 +199 TIM2+F+I+G4 21164.169 39 42406.339 42407.932 42624.735 +200 TIM2+F+R2 21250.859 39 42579.718 42581.311 42798.114 +201 TIM2+F+R3 21161.472 41 42404.944 42406.705 42634.540 +202 TIM2+F+R4 21161.451 43 42408.901 42410.838 42649.697 +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 21726.609 35 43523.217 43524.502 43719.214 +212 TIM3e+I+G4 21716.694 36 43505.389 43506.747 43706.985 +213 TIM3e+R2 21782.533 36 43637.066 43638.424 43838.662 +214 TIM3e+R3 21711.819 38 43499.637 43501.150 43712.433 +215 TIM3e+R4 21711.742 40 43503.483 43505.159 43727.479 +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 43015.916 43232.718 +227 TIM3+F+R3 21368.552 41 42819.105 42820.866 43048.701 +228 TIM3+F+R4 21368.424 43 42822.849 42824.785 43063.644 +235 TVMe 22817.711 35 45705.422 45706.706 45901.418 +236 TVMe+I 21797.850 36 43667.700 43669.059 43869.297 +237 TVMe+G4 21428.286 36 42928.572 42929.931 43130.169 +238 TVMe+I+G4 21413.119 37 42900.239 42901.673 43107.435 +239 TVMe+R2 21479.691 37 43033.381 43034.816 43240.577 +240 TVMe+R3 21406.120 39 42890.240 42891.833 43108.636 +241 TVMe+R4 21406.012 41 42894.025 42895.785 43123.621 +248 TVM+F 22815.643 38 45707.287 45708.800 45920.083 +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 21295.083 40 42670.167 42671.843 42894.163 +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 21286.748 44 42661.497 42663.524 42907.892 +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 42841.013 42842.526 43053.810 +266 SYM+R3 21308.460 40 42696.920 42698.596 42920.916 +267 SYM+R4 21308.452 42 42700.905 42702.752 42936.101 +274 GTR+F 22704.657 39 45487.313 45488.907 45705.710 +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 21160.196 41 42402.391 42404.152 42631.987 +278 GTR+F+R2 21247.034 41 42576.068 42577.829 42805.664 +279 GTR+F+R3 21157.734 43 42401.468 42403.405 42642.264 +280 GTR+F+R4 21157.665 45 42405.330 42407.451 42657.326 +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: 19.937 seconds (0h:0m:19s) -Wall-clock time for ModelFinder: 20.267 seconds (0h:0m:20s) +CPU time for ModelFinder: 42.713 seconds (0h:0m:42s) +Wall-clock time for ModelFinder: 44.344 seconds (0h:0m:44s) 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, 0.980 / LogL: -11313.879 -Init pinv, alpha: 0.012, 1.000 / Estimate: 0.087, 1.704 / LogL: -11296.117 -Init pinv, alpha: 0.023, 1.000 / Estimate: 0.087, 1.706 / LogL: -11296.111 -Init pinv, alpha: 0.035, 1.000 / Estimate: 0.087, 1.703 / LogL: -11296.113 -Init pinv, alpha: 0.046, 1.000 / Estimate: 0.087, 1.707 / LogL: -11296.111 -Init pinv, alpha: 0.058, 1.000 / Estimate: 0.087, 1.703 / LogL: -11296.113 -Init pinv, alpha: 0.069, 1.000 / Estimate: 0.087, 1.706 / LogL: -11296.110 -Init pinv, alpha: 0.081, 1.000 / Estimate: 0.087, 1.709 / LogL: -11296.109 -Init pinv, alpha: 0.093, 1.000 / Estimate: 0.087, 1.712 / LogL: -11296.109 -Init pinv, alpha: 0.104, 1.000 / Estimate: 0.087, 1.712 / LogL: -11296.110 -Optimal pinv,alpha: 0.087, 1.712 / LogL: -11296.109 +Init pinv, alpha: 0.000, 1.000 / Estimate: 0.000, 0.485 / LogL: -21172.273 +Init pinv, alpha: 0.038, 1.000 / Estimate: 0.047, 0.538 / LogL: -21168.913 +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 1.507 sec -Computing ML distances based on estimated model parameters... 0.023 sec +Parameters optimization took 5.951 sec +Computing ML distances based on estimated model parameters... 0.011 sec Computing BIONJ tree... -0.001 seconds -Log-likelihood of BIONJ tree: -11258.752 +0.007 seconds +Log-likelihood of BIONJ tree: -21157.759 -------------------------------------------------------------------- | INITIALIZING CANDIDATE TREE SET | -------------------------------------------------------------------- -Generating 98 parsimony trees... 0.640 second -Computing log-likelihood of 98 initial trees ... 1.539 seconds -Current best score: -11241.369 +Generating 98 parsimony trees... 0.562 second +Computing log-likelihood of 98 initial trees ... 3.263 seconds +Current best score: -21157.759 Do NNI search on 20 best initial trees Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 1: -11225.738 +BETTER TREE FOUND at iteration 1: -21157.726 Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 6: -11225.479 -Iteration 10 / LogL: -11244.650 / Time: 0h:0m:4s -Iteration 20 / LogL: -11225.683 / Time: 0h:0m:6s -Finish initializing candidate tree set (17) -Current best tree score: -11225.479 / CPU time: 4.592 +BETTER TREE FOUND at iteration 2: -21152.525 +Iteration 10 / LogL: -21157.869 / Time: 0h:0m:12s +Iteration 20 / LogL: -21152.617 / Time: 0h:0m:14s +Finish initializing candidate tree set (2) +Current best tree score: -21152.525 / CPU time: 8.438 Number of iterations: 20 -------------------------------------------------------------------- | OPTIMIZING CANDIDATE TREE SET | -------------------------------------------------------------------- -Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 22: -11224.951 -Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 26: -11224.920 -Iteration 30 / LogL: -11225.170 / Time: 0h:0m:7s (0h:0m:26s left) -Iteration 40 / LogL: -11225.205 / Time: 0h:0m:9s (0h:0m:21s left) -Iteration 50 / LogL: -11225.724 / Time: 0h:0m:11s (0h:0m:17s left) -Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 54: -11224.070 -Iteration 60 / LogL: -11225.664 / Time: 0h:0m:13s (0h:0m:21s left) -Iteration 70 / LogL: -11225.511 / Time: 0h:0m:15s (0h:0m:18s left) -Iteration 80 / LogL: -11224.653 / Time: 0h:0m:16s (0h:0m:15s left) -Iteration 90 / LogL: -11224.094 / Time: 0h:0m:18s (0h:0m:13s left) -Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 97: -11222.785 -Iteration 100 / LogL: -11230.913 / Time: 0h:0m:20s (0h:0m:20s left) -Iteration 110 / LogL: -11222.895 / Time: 0h:0m:22s (0h:0m:17s left) -Iteration 120 / LogL: -11223.192 / Time: 0h:0m:24s (0h:0m:15s left) -Iteration 130 / LogL: -11222.787 / Time: 0h:0m:25s (0h:0m:13s left) -UPDATE BEST LOG-LIKELIHOOD: -11222.785 -Iteration 140 / LogL: -11225.930 / Time: 0h:0m:27s (0h:0m:11s left) -Iteration 150 / LogL: -11234.722 / Time: 0h:0m:29s (0h:0m:9s left) -Iteration 160 / LogL: -11223.662 / Time: 0h:0m:31s (0h:0m:7s left) -Iteration 170 / LogL: -11234.786 / Time: 0h:0m:33s (0h:0m:5s left) -Iteration 180 / LogL: -11228.923 / Time: 0h:0m:35s (0h:0m:3s left) -Iteration 190 / LogL: -11223.562 / Time: 0h:0m:36s (0h:0m:1s left) -TREE SEARCH COMPLETED AFTER 198 ITERATIONS / Time: 0h:0m:38s +Iteration 30 / LogL: -21152.938 / Time: 0h:0m:17s (0h:0m:42s left) +Iteration 40 / LogL: -21152.545 / Time: 0h:0m:19s (0h:0m:31s left) +Iteration 50 / LogL: -21152.568 / Time: 0h:0m:22s (0h:0m:23s left) +Iteration 60 / LogL: -21154.661 / Time: 0h:0m:24s (0h:0m:17s left) +Iteration 70 / LogL: -21152.576 / Time: 0h:0m:27s (0h:0m:12s left) +Iteration 80 / LogL: -21152.954 / Time: 0h:0m:29s (0h:0m:8s left) +Iteration 90 / LogL: -21152.536 / Time: 0h:0m:32s (0h:0m:4s left) +Iteration 100 / LogL: -21152.573 / Time: 0h:0m:34s (0h:0m:0s left) +TREE SEARCH COMPLETED AFTER 103 ITERATIONS / Time: 0h:0m:35s -------------------------------------------------------------------- | FINALIZING TREE SEARCH | -------------------------------------------------------------------- Performs final model parameters optimization Estimate model parameters (epsilon = 0.010) -1. Initial log-likelihood: -11222.785 -Optimal log-likelihood: -11222.780 -Rate parameters: A-C: 1.53642 A-G: 2.64880 A-T: 1.69873 C-G: 2.01056 C-T: 2.64880 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 : -11222.780 -Total tree length: 12.595 +1. Initial log-likelihood: -21152.525 +Optimal log-likelihood: -21152.523 +Rate parameters: A-C: 5.58055 A-G: 7.64567 A-T: 5.58055 C-G: 1.00000 C-T: 22.62532 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 (0.112 sec) +BEST SCORE FOUND : -21152.523 +Total tree length: 4.218 -Total number of iterations: 198 -CPU time used for tree search: 35.776 sec (0h:0m:35s) -Wall-clock time used for tree search: 36.610 sec (0h:0m:36s) -Total CPU time used: 37.380 sec (0h:0m:37s) -Total wall-clock time used: 38.230 sec (0h:0m:38s) +Total number of iterations: 103 +CPU time used for tree search: 28.867 sec (0h:0m:28s) +Wall-clock time used for tree search: 29.252 sec (0h:0m:29s) +Total CPU time used: 34.948 sec (0h:0m:34s) +Total wall-clock time used: 35.507 sec (0h:0m:35s) Analysis results written to: IQ-TREE report: example.phy.iqtree @@ -4878,354 +4880,285 @@ Likelihood distances: example.phy.mldist Screen log file: example.phy.log -Date and Time: Wed Jun 29 00:06:16 2022 -57.33user 1.17system 0:58.51elapsed 99%CPU (0avgtext+0avgdata 11944maxresident)k -0inputs+296outputs (0major+68032minor)pagefaults 0swaps -+ time /build/iqtree-1.6.12+dfsg/build.omp/iqtree-omp -s example.phy -omp 2 -redo +Date and Time: Thu May 27 20:00:57 2021 + +real 1m19.919s +user 1m17.695s +sys 0m1.160s ++ /build/iqtree-1.6.12+dfsg/build.omp/iqtree-omp -s example.phy -omp 2 -redo IQ-TREE multicore version 1.6.12 for Linux 32-bit built Dec 4 2019 Developed by Bui Quang Minh, Nguyen Lam Tung, Olga Chernomor, Heiko Schmidt, Dominik Schrempf, Michael Woodhams. -Host: ionos16-i386 (SSE4.2, 35 GB RAM) +Host: i-capture-the-hostname (SSE4.2, 35 GB RAM) Command: /build/iqtree-1.6.12+dfsg/build.omp/iqtree-omp -s example.phy -omp 2 -redo -Seed: 470572 (Using SPRNG - Scalable Parallel Random Number Generator) -Time: Wed Jun 29 00:06:16 2022 -Kernel: SSE2 - 2 threads (18 CPU cores detected) +Seed: 263445 (Using SPRNG - Scalable Parallel Random Number Generator) +Time: Thu May 27 20:00:57 2021 +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 11912.566 85 23995.131 24044.191 24330.936 - 2 JC+I 11659.889 86 23491.778 23542.162 23831.534 - 3 JC+G4 11385.895 86 22943.790 22994.173 23283.545 - 4 JC+I+G4 11366.818 87 22907.635 22959.365 23251.341 - 5 JC+R2 11479.523 87 23133.046 23184.775 23476.752 - 6 JC+R3 11373.187 89 22924.375 22978.865 23275.982 - 7 JC+R4 11361.103 91 22904.207 22961.549 23263.715 - 8 JC+R5 11360.966 93 22907.932 22968.221 23275.342 - 14 F81+F 11915.634 88 24007.268 24060.366 24354.925 - 15 F81+F+I 11659.637 89 23497.274 23551.764 23848.881 - 16 F81+F+G4 11380.931 89 22939.862 22994.352 23291.469 - 17 F81+F+I+G4 11362.024 90 22904.048 22959.952 23259.606 - 18 F81+F+R2 11476.590 90 23133.181 23189.085 23488.739 - 19 F81+F+R3 11364.142 92 22912.284 22971.088 23275.743 - 20 F81+F+R4 11356.169 94 22900.337 22962.137 23271.698 - 21 F81+F+R5 11356.154 96 22904.309 22969.201 23283.570 - 27 K2P 11874.700 86 23921.399 23971.783 24261.155 - 28 K2P+I 11621.287 87 23416.573 23468.303 23760.279 - 29 K2P+G4 11343.265 87 22860.530 22912.259 23204.236 - 30 K2P+I+G4 11324.732 88 22825.465 22878.563 23173.121 - 31 K2P+R2 11439.677 88 23055.354 23108.452 23403.010 - 32 K2P+R3 11326.355 90 22832.711 22888.615 23188.268 - 33 K2P+R4 11318.416 92 22820.832 22879.636 23184.291 - 34 K2P+R5 11318.313 94 22824.626 22886.425 23195.986 - 40 HKY+F 11877.231 89 23932.462 23986.952 24284.069 - 41 HKY+F+I 11619.641 90 23419.282 23475.187 23774.840 - 42 HKY+F+G4 11335.874 90 22851.748 22907.652 23207.306 - 43 HKY+F+I+G4 11317.536 91 22817.071 22874.414 23176.580 - 44 HKY+F+R2 11434.764 91 23051.528 23108.870 23411.036 - 45 HKY+F+R3 11319.981 93 22825.961 22886.251 23193.371 - 46 HKY+F+R4 11311.220 95 22812.440 22875.773 23187.751 - 47 HKY+F+R5 11311.163 97 22816.326 22882.802 23199.539 - 53 TNe 11874.227 87 23922.454 23974.183 24266.160 - 54 TNe+I 11616.399 88 23408.798 23461.896 23756.454 - 55 TNe+G4 11342.242 88 22860.484 22913.582 23208.141 - 56 TNe+I+G4 11323.049 89 22824.098 22878.588 23175.705 - 57 TNe+R2 11439.024 89 23056.048 23110.538 23407.655 - 58 TNe+R3 11322.819 91 22827.638 22884.981 23187.147 - 59 TNe+R4 11315.486 93 22816.971 22877.261 23184.381 - 60 TNe+R5 11315.417 95 22820.834 22884.167 23196.145 - 66 TN+F 11876.686 90 23933.373 23989.277 24288.931 - 67 TN+F+I 11614.039 91 23410.078 23467.421 23769.587 - 68 TN+F+G4 11334.319 91 22850.637 22907.980 23210.146 - 69 TN+F+I+G4 11315.162 92 22814.324 22873.129 23177.784 - 70 TN+F+R2 11433.772 92 23051.543 23110.347 23415.002 - 71 TN+F+R3 11315.669 94 22819.338 22881.137 23190.698 - 72 TN+F+R4 11307.480 96 22806.960 22871.852 23186.222 - 73 TN+F+R5 11307.442 98 22810.884 22878.968 23198.047 - 79 K3P 11853.495 87 23880.990 23932.719 24224.696 - 80 K3P+I 11599.665 88 23375.330 23428.428 23722.986 - 81 K3P+G4 11326.708 88 22829.415 22882.513 23177.072 - 82 K3P+I+G4 11307.364 89 22792.728 22847.218 23144.336 - 83 K3P+R2 11418.686 89 23015.373 23069.862 23366.980 - 84 K3P+R3 11307.150 91 22796.301 22853.643 23155.809 - 85 K3P+R4 11299.676 93 22785.352 22845.642 23152.762 - 86 K3P+R5 11299.658 95 22789.316 22852.649 23164.627 - 92 K3Pu+F 11856.077 90 23892.154 23948.058 24247.712 - 93 K3Pu+F+I 11598.105 91 23378.210 23435.552 23737.718 - 94 K3Pu+F+G4 11320.114 91 22822.228 22879.571 23181.737 - 95 K3Pu+F+I+G4 11300.915 92 22785.830 22844.634 23149.289 - 96 K3Pu+F+R2 11414.158 92 23012.316 23071.121 23375.776 - 97 K3Pu+F+R3 11301.554 94 22791.108 22852.907 23162.469 - 98 K3Pu+F+R4 11293.160 96 22778.320 22843.212 23157.581 - 99 K3Pu+F+R5 11293.138 98 22782.275 22850.360 23169.438 -105 TPM2+F 11877.146 90 23934.292 23990.197 24289.850 -106 TPM2+F+I 11619.417 91 23420.834 23478.177 23780.343 -107 TPM2+F+G4 11335.477 91 22852.954 22910.297 23212.463 -108 TPM2+F+I+G4 11317.200 92 22818.400 22877.204 23181.859 -109 TPM2+F+R2 11434.608 92 23053.217 23112.021 23416.676 -110 TPM2+F+R3 11318.597 94 22825.195 22886.994 23196.555 -111 TPM2+F+R4 11309.408 96 22810.817 22875.709 23190.078 -112 TPM2+F+R5 11309.396 98 22814.791 22882.875 23201.954 -118 TPM2u+F 11877.146 90 23934.291 23990.196 24289.849 -119 TPM2u+F+I 11619.417 91 23420.835 23478.177 23780.343 -120 TPM2u+F+G4 11335.477 91 22852.953 22910.296 23212.462 -121 TPM2u+F+I+G4 11317.202 92 22818.404 22877.208 23181.863 -122 TPM2u+F+R2 11434.612 92 23053.225 23112.029 23416.684 -123 TPM2u+F+R3 11318.595 94 22825.190 22886.989 23196.550 -124 TPM2u+F+R4 11309.392 96 22810.784 22875.676 23190.046 -125 TPM2u+F+R5 11309.379 98 22814.759 22882.843 23201.922 -131 TPM3+F 11840.659 90 23861.319 23917.223 24216.877 -132 TPM3+F+I 11604.676 91 23391.353 23448.695 23750.861 -133 TPM3+F+G4 11330.209 91 22842.419 22899.761 23201.927 -134 TPM3+F+I+G4 11312.847 92 22809.693 22868.497 23173.152 -135 TPM3+F+R2 11426.764 92 23037.527 23096.331 23400.986 -136 TPM3+F+R3 11312.042 94 22812.085 22873.884 23183.445 -137 TPM3+F+R4 11304.518 96 22801.036 22865.928 23180.298 -138 TPM3+F+R5 11304.517 98 22805.034 22873.118 23192.196 -144 TPM3u+F 11840.659 90 23861.319 23917.223 24216.877 -145 TPM3u+F+I 11604.676 91 23391.353 23448.695 23750.861 -146 TPM3u+F+G4 11330.210 91 22842.420 22899.763 23201.929 -147 TPM3u+F+I+G4 11312.847 92 22809.694 22868.498 23173.153 -148 TPM3u+F+R2 11426.740 92 23037.480 23096.284 23400.939 -149 TPM3u+F+R3 11312.042 94 22812.084 22873.883 23183.444 -150 TPM3u+F+R4 11304.511 96 22801.023 22865.915 23180.284 -151 TPM3u+F+R5 11304.507 98 22805.013 22873.097 23192.176 -157 TIMe 11853.021 88 23882.042 23935.141 24229.699 -158 TIMe+I 11594.771 89 23367.542 23422.032 23719.149 -159 TIMe+G4 11325.692 89 22829.383 22883.873 23180.991 -160 TIMe+I+G4 11305.692 90 22791.384 22847.289 23146.942 -161 TIMe+R2 11418.048 90 23016.097 23072.001 23371.655 -162 TIMe+R3 11303.843 92 22791.687 22850.491 23155.146 -163 TIMe+R4 11297.177 94 22782.353 22844.153 23153.714 -164 TIMe+R5 11297.163 96 22786.325 22851.217 23165.587 -170 TIM+F 11855.533 91 23893.065 23950.408 24252.574 -171 TIM+F+I 11592.513 92 23369.026 23427.830 23732.485 -172 TIM+F+G4 11318.589 92 22821.177 22879.981 23184.636 -173 TIM+F+I+G4 11298.574 93 22783.148 22843.437 23150.557 -174 TIM+F+R2 11413.092 93 23012.185 23072.475 23379.595 -175 TIM+F+R3 11297.415 95 22784.829 22848.162 23160.140 -176 TIM+F+R4 11289.857 97 22773.713 22840.189 23156.926 -177 TIM+F+R5 11289.848 99 22777.697 22847.415 23168.810 -183 TIM2e 11874.094 88 23924.187 23977.286 24271.844 -184 TIM2e+I 11616.114 89 23410.228 23464.718 23761.835 -185 TIM2e+G4 11342.016 89 22862.033 22916.523 23213.640 -186 TIM2e+I+G4 11322.875 90 22825.750 22881.655 23181.308 -187 TIM2e+R2 11438.970 90 23057.941 23113.845 23413.499 -188 TIM2e+R3 11321.595 92 22827.191 22885.995 23190.650 -189 TIM2e+R4 11314.067 94 22816.134 22877.933 23187.494 -190 TIM2e+R5 11314.058 96 22820.117 22885.009 23199.379 -196 TIM2+F 11876.604 91 23935.207 23992.550 24294.716 -197 TIM2+F+I 11613.830 92 23411.659 23470.463 23775.118 -198 TIM2+F+G4 11333.935 92 22851.870 22910.674 23215.329 -199 TIM2+F+I+G4 11314.853 93 22815.705 22875.995 23183.115 -200 TIM2+F+R2 11433.637 93 23053.275 23113.565 23420.685 -201 TIM2+F+R3 11314.509 95 22819.017 22882.351 23194.328 -202 TIM2+F+R4 11305.979 97 22805.959 22872.434 23189.171 -203 TIM2+F+R5 11305.961 99 22809.923 22879.641 23201.036 -209 TIM3e 11828.787 88 23833.575 23886.673 24181.231 -210 TIM3e+I 11595.355 89 23368.710 23423.200 23720.317 -211 TIM3e+G4 11331.800 89 22841.600 22896.090 23193.207 -212 TIM3e+I+G4 11313.990 90 22807.979 22863.884 23163.537 -213 TIM3e+R2 11425.429 90 23030.858 23086.762 23386.415 -214 TIM3e+R3 11309.847 92 22803.694 22862.498 23167.153 -215 TIM3e+R4 11304.176 94 22796.353 22858.152 23167.713 -222 TIM3+F 11839.952 91 23861.905 23919.247 24221.413 -223 TIM3+F+I 11599.086 92 23382.172 23440.977 23745.632 -224 TIM3+F+G4 11328.549 92 22841.098 22899.902 23204.557 -225 TIM3+F+I+G4 11310.405 93 22806.810 22867.100 23174.220 -226 TIM3+F+R2 11425.794 93 23037.588 23097.877 23404.997 -227 TIM3+F+R3 11307.863 95 22805.725 22869.059 23181.036 -228 TIM3+F+R4 11300.800 97 22795.600 22862.076 23178.813 -229 TIM3+F+R5 11300.781 99 22799.563 22869.281 23190.677 -235 TVMe 11807.354 89 23792.707 23847.197 24144.315 -236 TVMe+I 11577.825 90 23335.650 23391.555 23691.208 -237 TVMe+G4 11313.878 90 22807.756 22863.661 23163.314 -238 TVMe+I+G4 11296.114 91 22774.227 22831.570 23133.736 -239 TVMe+R2 11404.255 91 22990.510 23047.852 23350.018 -240 TVMe+R3 11293.640 93 22773.279 22833.569 23140.689 -241 TVMe+R4 11288.350 95 22766.701 22830.034 23142.012 -248 TVM+F 11818.566 92 23821.132 23879.936 24184.591 -249 TVM+F+I 11582.327 93 23350.653 23410.943 23718.063 -250 TVM+F+G4 11311.673 93 22809.346 22869.635 23176.756 -251 TVM+F+I+G4 11293.643 94 22775.286 22837.085 23146.646 -252 TVM+F+R2 11404.990 94 22997.979 23059.779 23369.340 -253 TVM+F+R3 11292.899 96 22777.799 22842.691 23157.060 -254 TVM+F+R4 11286.261 98 22768.522 22836.606 23155.685 -255 TVM+F+R5 11286.240 100 22772.480 22843.858 23167.544 -261 SYM 11806.716 90 23793.432 23849.336 24148.990 -262 SYM+I 11572.954 91 23327.907 23385.250 23687.416 -263 SYM+G4 11312.647 91 22807.294 22864.637 23166.803 -264 SYM+I+G4 11294.284 92 22772.568 22831.372 23136.027 -265 SYM+R2 11403.561 92 22991.122 23049.926 23354.581 -266 SYM+R3 11290.136 94 22768.272 22830.072 23139.633 -267 SYM+R4 11285.371 96 22762.741 22827.633 23142.003 -274 GTR+F 11817.853 93 23821.707 23881.996 24189.116 -275 GTR+F+I 11576.719 94 23341.438 23403.237 23712.798 -276 GTR+F+G4 11310.031 94 22808.062 22869.861 23179.422 -277 GTR+F+I+G4 11291.245 95 22772.489 22835.823 23147.801 -278 GTR+F+R2 11404.058 95 22998.115 23061.449 23373.426 -279 GTR+F+R3 11288.676 97 22771.351 22837.827 23154.564 -280 GTR+F+R4 11282.635 99 22763.271 22832.989 23154.384 -281 GTR+F+R5 11282.621 101 22767.242 22840.306 23166.257 -Akaike Information Criterion: SYM+R4 -Corrected Akaike Information Criterion: SYM+R4 -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 22284.450 33 44634.900 44636.043 44819.697 + 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 44106.206 44107.719 44319.003 + 20 F81+F+R4 22015.030 40 44110.060 44111.736 44334.056 + 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 21827.581 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 43831.161 + 58 TNe+R3 21712.362 37 43498.724 43500.158 43705.920 + 59 TNe+R4 21712.298 39 43502.597 43504.190 43720.993 + 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 42838.422 43044.184 + 69 TN+F+I+G4 21372.251 38 42820.501 42822.014 43033.298 + 70 TN+F+R2 21468.252 38 43012.503 43014.016 43225.299 + 71 TN+F+R3 21369.063 40 42818.125 42819.801 43042.121 + 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 21837.968 35 43745.935 43747.220 43941.932 + 83 K3P+R2 21896.658 35 43863.317 43864.601 44059.314 + 84 K3P+R3 21827.462 37 43728.923 43730.358 43936.120 + 85 K3P+R4 21827.429 39 43732.858 43734.452 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 21471.092 40 43022.184 43023.860 43246.180 + 98 K3Pu+F+R4 21471.067 42 43026.134 43027.981 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 42904.541 +108 TPM2+F+I+G4 21298.849 38 42673.698 42675.211 42886.494 +109 TPM2+F+R2 21369.634 38 42815.269 42816.782 43028.065 +110 TPM2+F+R3 21290.293 40 42660.587 42662.263 42884.583 +111 TPM2+F+R4 21290.281 42 42664.562 42666.410 42899.758 +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 42673.665 42675.178 42886.461 +122 TPM2u+F+R2 21369.633 38 42815.267 42816.780 43028.063 +123 TPM2u+F+R3 21290.290 40 42660.581 42662.257 42884.577 +124 TPM2u+F+R4 21290.290 42 42664.580 42666.428 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 21470.759 40 43021.518 43023.194 43245.514 +137 TPM3+F+R4 21470.699 42 43025.399 43027.246 43260.594 +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 43248.589 43250.102 43461.386 +149 TPM3u+F+R3 21470.771 40 43021.542 43023.218 43245.538 +150 TPM3u+F+R4 21470.686 42 43025.373 43027.220 43260.568 +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 43500.524 43502.037 43713.320 +163 TIMe+R4 21712.218 40 43504.436 43506.112 43728.432 +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 21381.147 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 43014.330 43231.132 +175 TIM+F+R3 21368.698 41 42819.396 42821.157 43048.992 +176 TIM+F+R4 21368.667 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 42844.325 43044.563 +188 TIM2e+R3 21311.770 38 42699.541 42701.054 42912.337 +189 TIM2e+R4 21311.621 40 42703.242 42704.918 42927.238 +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 42633.293 +199 TIM2+F+I+G4 21164.169 39 42406.338 42407.932 42624.735 +200 TIM2+F+R2 21250.859 39 42579.718 42581.311 42798.114 +201 TIM2+F+R3 21161.472 41 42404.944 42406.705 42634.540 +202 TIM2+F+R4 21161.451 43 42408.901 42410.838 42649.697 +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 21726.609 35 43523.217 43524.502 43719.214 +212 TIM3e+I+G4 21716.694 36 43505.389 43506.747 43706.985 +213 TIM3e+R2 21782.533 36 43637.066 43638.424 43838.662 +214 TIM3e+R3 21711.819 38 43499.637 43501.150 43712.433 +215 TIM3e+R4 21711.742 40 43503.483 43505.159 43727.479 +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 43015.916 43232.718 +227 TIM3+F+R3 21368.552 41 42819.105 42820.866 43048.701 +228 TIM3+F+R4 21368.424 43 42822.849 42824.785 43063.644 +235 TVMe 22817.711 35 45705.422 45706.706 45901.418 +236 TVMe+I 21797.850 36 43667.700 43669.059 43869.297 +237 TVMe+G4 21428.286 36 42928.572 42929.931 43130.169 +238 TVMe+I+G4 21413.119 37 42900.239 42901.673 43107.435 +239 TVMe+R2 21479.691 37 43033.381 43034.816 43240.577 +240 TVMe+R3 21406.120 39 42890.240 42891.833 43108.636 +241 TVMe+R4 21406.012 41 42894.025 42895.785 43123.621 +248 TVM+F 22815.643 38 45707.287 45708.800 45920.083 +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 21295.083 40 42670.167 42671.843 42894.163 +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 21286.748 44 42661.497 42663.524 42907.892 +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 42841.013 42842.526 43053.810 +266 SYM+R3 21308.460 40 42696.920 42698.596 42920.916 +267 SYM+R4 21308.452 42 42700.905 42702.752 42936.101 +274 GTR+F 22704.657 39 45487.313 45488.907 45705.710 +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 21160.196 41 42402.391 42404.152 42631.987 +278 GTR+F+R2 21247.034 41 42576.068 42577.829 42805.664 +279 GTR+F+R3 21157.734 43 42401.468 42403.405 42642.264 +280 GTR+F+R4 21157.665 45 42405.330 42407.451 42657.326 +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: 0.041 seconds (0h:0m:0s) -Wall-clock time for ModelFinder: 0.061 seconds (0h:0m:0s) +CPU time for ModelFinder: 0.070 seconds (0h:0m:0s) +Wall-clock time for ModelFinder: 0.320 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, 0.980 / LogL: -11313.879 -Init pinv, alpha: 0.012, 1.000 / Estimate: 0.087, 1.704 / LogL: -11296.117 -Init pinv, alpha: 0.023, 1.000 / Estimate: 0.087, 1.706 / LogL: -11296.111 -Init pinv, alpha: 0.035, 1.000 / Estimate: 0.087, 1.703 / LogL: -11296.113 -Init pinv, alpha: 0.046, 1.000 / Estimate: 0.087, 1.707 / LogL: -11296.111 -Init pinv, alpha: 0.058, 1.000 / Estimate: 0.087, 1.703 / LogL: -11296.113 -Init pinv, alpha: 0.069, 1.000 / Estimate: 0.087, 1.706 / LogL: -11296.110 -Init pinv, alpha: 0.081, 1.000 / Estimate: 0.087, 1.709 / LogL: -11296.109 -Init pinv, alpha: 0.093, 1.000 / Estimate: 0.087, 1.712 / LogL: -11296.109 -Init pinv, alpha: 0.104, 1.000 / Estimate: 0.087, 1.712 / LogL: -11296.110 -Optimal pinv,alpha: 0.087, 1.712 / LogL: -11296.109 +Init pinv, alpha: 0.000, 1.000 / Estimate: 0.000, 0.485 / LogL: -21172.273 +Init pinv, alpha: 0.038, 1.000 / Estimate: 0.047, 0.538 / LogL: -21168.913 +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 1.089 sec -Computing ML distances based on estimated model parameters... 0.026 sec +Parameters optimization took 4.621 sec +Computing ML distances based on estimated model parameters... 0.009 sec Computing BIONJ tree... 0.001 seconds -Log-likelihood of BIONJ tree: -11258.752 +Log-likelihood of BIONJ tree: -21157.759 -------------------------------------------------------------------- | INITIALIZING CANDIDATE TREE SET | -------------------------------------------------------------------- -Generating 98 parsimony trees... 0.648 second -Computing log-likelihood of 98 initial trees ... 1.161 seconds -Current best score: -11242.285 +Generating 98 parsimony trees... 0.564 second +Computing log-likelihood of 98 initial trees ... 2.302 seconds +Current best score: -21157.759 Do NNI search on 20 best initial trees Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 1: -11231.841 -Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 4: -11226.433 +BETTER TREE FOUND at iteration 1: -21157.726 Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 5: -11225.463 -Iteration 10 / LogL: -11232.678 / Time: 0h:0m:3s -Iteration 20 / LogL: -11231.426 / Time: 0h:0m:4s -Finish initializing candidate tree set (17) -Current best tree score: -11225.463 / CPU time: 3.653 +BETTER TREE FOUND at iteration 2: -21152.525 +Iteration 10 / LogL: -21157.807 / Time: 0h:0m:9s +Iteration 20 / LogL: -21152.556 / Time: 0h:0m:10s +Finish initializing candidate tree set (2) +Current best tree score: -21152.525 / CPU time: 5.930 Number of iterations: 20 -------------------------------------------------------------------- | OPTIMIZING CANDIDATE TREE SET | -------------------------------------------------------------------- -Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 21: -11224.926 -Iteration 30 / LogL: -11225.712 / Time: 0h:0m:6s (0h:0m:18s left) -Iteration 40 / LogL: -11226.775 / Time: 0h:0m:7s (0h:0m:15s left) -UPDATE BEST LOG-LIKELIHOOD: -11224.924 -Iteration 50 / LogL: -11227.093 / Time: 0h:0m:8s (0h:0m:12s left) -Estimate model parameters (epsilon = 0.100) -UPDATE BEST LOG-LIKELIHOOD: -11224.864 -Iteration 60 / LogL: -11225.773 / Time: 0h:0m:10s (0h:0m:10s left) -Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 63: -11224.364 -Iteration 70 / LogL: -11227.052 / Time: 0h:0m:11s (0h:0m:15s left) -Iteration 80 / LogL: -11225.077 / Time: 0h:0m:12s (0h:0m:13s left) -Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 88: -11224.096 -Iteration 90 / LogL: -11224.137 / Time: 0h:0m:13s (0h:0m:15s left) -BETTER TREE FOUND at iteration 94: -11224.093 -Iteration 100 / LogL: -11224.442 / Time: 0h:0m:15s (0h:0m:14s left) -Iteration 110 / LogL: -11225.717 / Time: 0h:0m:16s (0h:0m:12s left) -Estimate model parameters (epsilon = 0.100) -BETTER TREE FOUND at iteration 112: -11222.778 -Iteration 120 / LogL: -11224.748 / Time: 0h:0m:17s (0h:0m:13s left) -Iteration 130 / LogL: -11223.051 / Time: 0h:0m:19s (0h:0m:12s left) -Iteration 140 / LogL: -11232.168 / Time: 0h:0m:20s (0h:0m:10s left) -Iteration 150 / LogL: -11231.855 / Time: 0h:0m:21s (0h:0m:8s left) -Iteration 160 / LogL: -11222.819 / Time: 0h:0m:22s (0h:0m:7s left) -Iteration 170 / LogL: -11235.911 / Time: 0h:0m:23s (0h:0m:5s left) -Iteration 180 / LogL: -11222.801 / Time: 0h:0m:25s (0h:0m:4s left) -Iteration 190 / LogL: -11223.435 / Time: 0h:0m:26s (0h:0m:3s left) -Iteration 200 / LogL: -11222.783 / Time: 0h:0m:27s (0h:0m:1s left) -Iteration 210 / LogL: -11223.148 / Time: 0h:0m:28s (0h:0m:0s left) -TREE SEARCH COMPLETED AFTER 213 ITERATIONS / Time: 0h:0m:29s +Iteration 30 / LogL: -21157.776 / Time: 0h:0m:12s (0h:0m:30s left) +Iteration 40 / LogL: -21157.748 / Time: 0h:0m:13s (0h:0m:21s left) +Iteration 50 / LogL: -21152.598 / Time: 0h:0m:15s (0h:0m:16s left) +Iteration 60 / LogL: -21153.310 / Time: 0h:0m:16s (0h:0m:12s left) +Iteration 70 / LogL: -21152.683 / Time: 0h:0m:18s (0h:0m:8s left) +Iteration 80 / LogL: -21157.838 / Time: 0h:0m:20s (0h:0m:5s left) +Iteration 90 / LogL: -21152.691 / Time: 0h:0m:21s (0h:0m:2s left) +Iteration 100 / LogL: -21152.563 / Time: 0h:0m:23s (0h:0m:0s left) +TREE SEARCH COMPLETED AFTER 103 ITERATIONS / Time: 0h:0m:23s -------------------------------------------------------------------- | FINALIZING TREE SEARCH | -------------------------------------------------------------------- Performs final model parameters optimization Estimate model parameters (epsilon = 0.010) -1. Initial log-likelihood: -11222.778 -Optimal log-likelihood: -11222.776 -Rate parameters: A-C: 1.53429 A-G: 2.63873 A-T: 1.69419 C-G: 2.00549 C-T: 2.63873 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: 1.530 -Parameters optimization took 1 rounds (0.022 sec) -BEST SCORE FOUND : -11222.776 -Total tree length: 12.602 +1. Initial log-likelihood: -21152.525 +Optimal log-likelihood: -21152.523 +Rate parameters: A-C: 5.58055 A-G: 7.64567 A-T: 5.58055 C-G: 1.00000 C-T: 22.62532 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 (0.081 sec) +BEST SCORE FOUND : -21152.523 +Total tree length: 4.218 -Total number of iterations: 213 -CPU time used for tree search: 54.695 sec (0h:0m:54s) -Wall-clock time used for tree search: 28.113 sec (0h:0m:28s) -Total CPU time used: 57.006 sec (0h:0m:57s) -Total wall-clock time used: 29.283 sec (0h:0m:29s) +Total number of iterations: 103 +CPU time used for tree search: 36.895 sec (0h:0m:36s) +Wall-clock time used for tree search: 19.016 sec (0h:0m:19s) +Total CPU time used: 46.332 sec (0h:0m:46s) +Total wall-clock time used: 23.841 sec (0h:0m:23s) Analysis results written to: IQ-TREE report: example.phy.iqtree @@ -5233,12 +5166,14 @@ Likelihood distances: example.phy.mldist Screen log file: example.phy.log -Date and Time: Wed Jun 29 00:06:45 2022 -57.05user 0.93system 0:29.36elapsed 197%CPU (0avgtext+0avgdata 11152maxresident)k -0inputs+320outputs (0major+1235minor)pagefaults 0swaps -+ rm -rf /tmp/iqtree-test.nNlZaZ -114.40user 2.11system 1:27.90elapsed 132%CPU (0avgtext+0avgdata 11944maxresident)k -0inputs+664outputs (0major+70565minor)pagefaults 0swaps +Date and Time: Thu May 27 20:01:21 2021 + +real 0m24.251s +user 0m46.452s +sys 0m0.485s ++ rm -rf /tmp/iqtree-test.OiqkQU +124.18user 1.69system 1:44.33elapsed 120%CPU (0avgtext+0avgdata 11616maxresident)k +16680inputs+2792outputs (43major+105185minor)pagefaults 0swaps rm example.short make[1]: Leaving directory '/build/iqtree-1.6.12+dfsg' create-stamp debian/debhelper-build-stamp @@ -5249,7 +5184,7 @@ debian/rules override_dh_auto_install make[1]: Entering directory '/build/iqtree-1.6.12+dfsg' dh_auto_install -Bbuild.omp - cd build.omp && make -j18 install DESTDIR=/build/iqtree-1.6.12\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd build.omp && make -j10 install DESTDIR=/build/iqtree-1.6.12\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' /usr/bin/cmake -S/build/iqtree-1.6.12+dfsg -B/build/iqtree-1.6.12+dfsg/build.omp --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles /build/iqtree-1.6.12+dfsg/build.omp//CMakeFiles/progress.marks @@ -5260,56 +5195,65 @@ make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/depend make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/gsl /build/iqtree-1.6.12+dfsg/build.omp/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= 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[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/lbfgsb /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/gsl /build/iqtree-1.6.12+dfsg/build.omp/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/ncl /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/ncl /build/iqtree-1.6.12+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/lbfgsb /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb /build/iqtree-1.6.12+dfsg/build.omp/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/whtest /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/whtest /build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pll /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/pll /build/iqtree-1.6.12+dfsg/build.omp/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/nclextra /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/nclextra /build/iqtree-1.6.12+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/whtest /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/whtest /build/iqtree-1.6.12+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/vectorclass /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/vectorclass /build/iqtree-1.6.12+dfsg/build.omp/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/sprng /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/sprng /build/iqtree-1.6.12+dfsg/build.omp/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/vectorclass /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/vectorclass /build/iqtree-1.6.12+dfsg/build.omp/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build +make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Nothing to be done for 'lbfgsb/CMakeFiles/lbfgsb.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +make[4]: Nothing to be done for 'vectorclass/CMakeFiles/vectorclass.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build -make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build +[ 1%] Built target lbfgsb make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -make[4]: Nothing to be done for 'sprng/CMakeFiles/sprng.dir/build'. +make[4]: Nothing to be done for 'gsl/CMakeFiles/gsl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build +make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -make[4]: Nothing to be done for 'vectorclass/CMakeFiles/vectorclass.dir/build'. +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/utils /build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= +[ 2%] Built target vectorclass make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -make[4]: Nothing to be done for 'gsl/CMakeFiles/gsl.dir/build'. +make[4]: Nothing to be done for 'sprng/CMakeFiles/sprng.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +[ 6%] Built target gsl make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build +[ 10%] Built target sprng +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Nothing to be done for 'nclextra/CMakeFiles/nclextra.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' @@ -5317,60 +5261,51 @@ make[4]: Nothing to be done for 'ncl/CMakeFiles/ncl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +make[4]: Nothing to be done for 'pll/CMakeFiles/pll.dir/build'. +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Nothing to be done for 'CMakeFiles/kernelsse.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -make[4]: Nothing to be done for 'pll/CMakeFiles/pll.dir/build'. -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 1%] Built target lbfgsb -make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Nothing to be done for 'whtest/CMakeFiles/whtest.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -[ 5%] Built target sprng -[ 9%] Built target gsl -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/utils /build/iqtree-1.6.12+dfsg/build.omp/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= -[ 10%] Built target vectorclass -[ 22%] Built target ncl -[ 23%] Built target nclextra -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend -[ 25%] Built target kernelsse -make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend -[ 31%] Built target whtest -[ 47%] Built target pll -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/alignment /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/alignment /build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/pda /build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Nothing to be done for 'utils/CMakeFiles/utils.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +[ 17%] Built target nclextra +make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend +[ 31%] Built target kernelsse +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/pda /build/iqtree-1.6.12+dfsg/build.omp/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= +[ 39%] Built target whtest +[ 45%] Built target ncl +make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build -[ 52%] Built target utils +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/alignment /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/alignment /build/iqtree-1.6.12+dfsg/build.omp/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= +[ 50%] Built target utils make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Nothing to be done for 'pda/CMakeFiles/pda.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' -make[4]: Nothing to be done for 'alignment/CMakeFiles/alignment.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' cd /build/iqtree-1.6.12+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/model /build/iqtree-1.6.12+dfsg/build.omp /build/iqtree-1.6.12+dfsg/build.omp/model /build/iqtree-1.6.12+dfsg/build.omp/model/CMakeFiles/model.dir/DependInfo.cmake --color= -[ 62%] Built target pda -[ 66%] Built target alignment +[ 52%] Built target pll +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' +make[4]: Nothing to be done for 'alignment/CMakeFiles/alignment.dir/build'. +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build +[ 65%] Built target pda make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' make[4]: Nothing to be done for 'model/CMakeFiles/model.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' +[ 66%] Built target alignment [ 83%] Built target model make -f tree/CMakeFiles/tree.dir/build.make tree/CMakeFiles/tree.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.omp' @@ -5409,7 +5344,7 @@ -- Installing: /build/iqtree-1.6.12+dfsg/debian/iqtree/usr/./example.cf make[2]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.omp' dh_auto_install -Bbuild.serial - cd build.serial && make -j18 install DESTDIR=/build/iqtree-1.6.12\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd build.serial && make -j10 install DESTDIR=/build/iqtree-1.6.12\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' /usr/bin/cmake -S/build/iqtree-1.6.12+dfsg -B/build/iqtree-1.6.12+dfsg/build.serial --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.12+dfsg/build.serial/CMakeFiles /build/iqtree-1.6.12+dfsg/build.serial//CMakeFiles/progress.marks @@ -5421,113 +5356,113 @@ make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/gsl /build/iqtree-1.6.12+dfsg/build.serial/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/gsl /build/iqtree-1.6.12+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 make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/lbfgsb /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/lbfgsb /build/iqtree-1.6.12+dfsg/build.serial/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/ncl /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/ncl /build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pll /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/pll /build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/nclextra /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/nclextra /build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/whtest /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/whtest /build/iqtree-1.6.12+dfsg/build.serial/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/nclextra /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/nclextra /build/iqtree-1.6.12+dfsg/build.serial/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pll /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/pll /build/iqtree-1.6.12+dfsg/build.serial/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/ncl /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/ncl /build/iqtree-1.6.12+dfsg/build.serial/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/sprng /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/sprng /build/iqtree-1.6.12+dfsg/build.serial/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/vectorclass /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/vectorclass /build/iqtree-1.6.12+dfsg/build.serial/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -make[4]: Nothing to be done for 'gsl/CMakeFiles/gsl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +make[4]: Nothing to be done for 'gsl/CMakeFiles/gsl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Nothing to be done for 'lbfgsb/CMakeFiles/lbfgsb.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Nothing to be done for 'sprng/CMakeFiles/sprng.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +make[4]: Nothing to be done for 'vectorclass/CMakeFiles/vectorclass.dir/build'. +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 1%] Built target lbfgsb +make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend +[ 5%] Built target gsl make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -make[4]: Nothing to be done for 'vectorclass/CMakeFiles/vectorclass.dir/build'. +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/utils /build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build -[ 4%] Built target gsl make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Nothing to be done for 'CMakeFiles/kernelsse.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -make[4]: Nothing to be done for 'pll/CMakeFiles/pll.dir/build'. -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 9%] Built target sprng +[ 10%] Built target vectorclass make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Nothing to be done for 'nclextra/CMakeFiles/nclextra.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Nothing to be done for 'ncl/CMakeFiles/ncl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -[ 5%] Built target lbfgsb make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -make[4]: Nothing to be done for 'whtest/CMakeFiles/whtest.dir/build'. +make[4]: Nothing to be done for 'pll/CMakeFiles/pll.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/utils /build/iqtree-1.6.12+dfsg/build.serial/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= -[ 6%] Built target vectorclass -[ 10%] Built target sprng +make[4]: Nothing to be done for 'whtest/CMakeFiles/whtest.dir/build'. +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' [ 12%] Built target kernelsse [ 15%] Built target nclextra -[ 25%] Built target ncl make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend -[ 41%] Built target pll -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/pda /build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/alignment /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/alignment /build/iqtree-1.6.12+dfsg/build.serial/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= -[ 47%] Built target whtest make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/pda /build/iqtree-1.6.12+dfsg/build.serial/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Nothing to be done for 'utils/CMakeFiles/utils.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 32%] Built target whtest make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build -[ 52%] Built target utils +[ 41%] Built target utils make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend +[ 52%] Built target pll +[ 52%] Built target ncl +make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/alignment /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/alignment /build/iqtree-1.6.12+dfsg/build.serial/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' +cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/model /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/model /build/iqtree-1.6.12+dfsg/build.serial/model/CMakeFiles/model.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Nothing to be done for 'pda/CMakeFiles/pda.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' +[ 62%] Built target pda +make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Nothing to be done for 'alignment/CMakeFiles/alignment.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' -cd /build/iqtree-1.6.12+dfsg/build.serial && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/model /build/iqtree-1.6.12+dfsg/build.serial /build/iqtree-1.6.12+dfsg/build.serial/model /build/iqtree-1.6.12+dfsg/build.serial/model/CMakeFiles/model.dir/DependInfo.cmake --color= -[ 63%] Built target pda -[ 66%] Built target alignment make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build +[ 66%] Built target alignment make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.serial' make[4]: Nothing to be done for 'model/CMakeFiles/model.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' @@ -5567,7 +5502,7 @@ -- Up-to-date: /build/iqtree-1.6.12+dfsg/debian/iqtree/usr/./example.cf make[2]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.serial' dh_auto_install -Bbuild.mpi - cd build.mpi && make -j18 install DESTDIR=/build/iqtree-1.6.12\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd build.mpi && make -j10 install DESTDIR=/build/iqtree-1.6.12\+dfsg/debian/iqtree AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' /usr/bin/cmake -S/build/iqtree-1.6.12+dfsg -B/build/iqtree-1.6.12+dfsg/build.mpi --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/iqtree-1.6.12+dfsg/build.mpi/CMakeFiles /build/iqtree-1.6.12+dfsg/build.mpi//CMakeFiles/progress.marks @@ -5579,113 +5514,113 @@ make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/depend make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/depend make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/gsl /build/iqtree-1.6.12+dfsg/build.mpi/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 make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/lbfgsb /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb /build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/ncl /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/ncl /build/iqtree-1.6.12+dfsg/build.mpi/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/gsl /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/gsl /build/iqtree-1.6.12+dfsg/build.mpi/gsl/CMakeFiles/gsl.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/lbfgsb /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb /build/iqtree-1.6.12+dfsg/build.mpi/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/nclextra /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/nclextra /build/iqtree-1.6.12+dfsg/build.mpi/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/sprng /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/sprng /build/iqtree-1.6.12+dfsg/build.mpi/sprng/CMakeFiles/sprng.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/whtest /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/whtest /build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= +cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pll /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/pll /build/iqtree-1.6.12+dfsg/build.mpi/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/vectorclass /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/vectorclass /build/iqtree-1.6.12+dfsg/build.mpi/vectorclass/CMakeFiles/vectorclass.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pll /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/pll /build/iqtree-1.6.12+dfsg/build.mpi/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= +cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/whtest /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/whtest /build/iqtree-1.6.12+dfsg/build.mpi/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build +make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Nothing to be done for 'gsl/CMakeFiles/gsl.dir/build'. -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build +make[4]: Nothing to be done for 'vectorclass/CMakeFiles/vectorclass.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +make[4]: Nothing to be done for 'lbfgsb/CMakeFiles/lbfgsb.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f vectorclass/CMakeFiles/vectorclass.dir/build.make vectorclass/CMakeFiles/vectorclass.dir/build +make -f gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Nothing to be done for 'lbfgsb/CMakeFiles/lbfgsb.dir/build'. +make -f sprng/CMakeFiles/sprng.dir/build.make sprng/CMakeFiles/sprng.dir/build make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Nothing to be done for 'vectorclass/CMakeFiles/vectorclass.dir/build'. +make[4]: Nothing to be done for 'gsl/CMakeFiles/gsl.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +[ 2%] Built target lbfgsb +[ 2%] Built target vectorclass make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' make[4]: Nothing to be done for 'sprng/CMakeFiles/sprng.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 4%] Built target gsl -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Nothing to be done for 'ncl/CMakeFiles/ncl.dir/build'. -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build -[ 5%] Built target lbfgsb -make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Nothing to be done for 'CMakeFiles/kernelsse.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/depend -make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/utils /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/utils /build/iqtree-1.6.12+dfsg/build.mpi/utils/CMakeFiles/utils.dir/DependInfo.cmake --color= -[ 9%] Built target sprng +[ 6%] Built target sprng +[ 10%] Built target gsl +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' make[4]: Nothing to be done for 'nclextra/CMakeFiles/nclextra.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 10%] Built target vectorclass -[ 20%] Built target ncl +make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' +make[4]: Nothing to be done for 'ncl/CMakeFiles/ncl.dir/build'. +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend +make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Nothing to be done for 'whtest/CMakeFiles/whtest.dir/build'. +make[4]: Nothing to be done for 'CMakeFiles/kernelsse.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' +[ 13%] Built target nclextra +make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/alignment /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/alignment 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'/build/iqtree-1.6.12+dfsg/build.mpi' make -f utils/CMakeFiles/utils.dir/build.make utils/CMakeFiles/utils.dir/build -[ 31%] Built target whtest +[ 25%] Built target ncl +make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/pda /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/pda /build/iqtree-1.6.12+dfsg/build.mpi/pda/CMakeFiles/pda.dir/DependInfo.cmake --color= -[ 47%] Built target pll +cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/alignment /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/alignment /build/iqtree-1.6.12+dfsg/build.mpi/alignment/CMakeFiles/alignment.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' make[4]: Nothing to be done for 'utils/CMakeFiles/utils.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build +make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build +[ 39%] Built target whtest make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Nothing to be done for 'alignment/CMakeFiles/alignment.dir/build'. +make[4]: Nothing to be done for 'pda/CMakeFiles/pda.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make -f pda/CMakeFiles/pda.dir/build.make pda/CMakeFiles/pda.dir/build -[ 52%] Built target utils +make -f alignment/CMakeFiles/alignment.dir/build.make alignment/CMakeFiles/alignment.dir/build +[ 45%] Built target utils make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/depend make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' -make[4]: Nothing to be done for 'pda/CMakeFiles/pda.dir/build'. +make[4]: Nothing to be done for 'alignment/CMakeFiles/alignment.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' -[ 56%] Built target alignment make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' cd /build/iqtree-1.6.12+dfsg/build.mpi && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/iqtree-1.6.12+dfsg /build/iqtree-1.6.12+dfsg/model /build/iqtree-1.6.12+dfsg/build.mpi /build/iqtree-1.6.12+dfsg/build.mpi/model /build/iqtree-1.6.12+dfsg/build.mpi/model/CMakeFiles/model.dir/DependInfo.cmake --color= -[ 66%] Built target pda +[ 63%] Built target pda +[ 66%] Built target alignment make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' make -f model/CMakeFiles/model.dir/build.make model/CMakeFiles/model.dir/build +[ 66%] Built target pll make[4]: Entering directory '/build/iqtree-1.6.12+dfsg/build.mpi' make[4]: Nothing to be done for 'model/CMakeFiles/model.dir/build'. make[4]: Leaving directory '/build/iqtree-1.6.12+dfsg/build.mpi' @@ -5778,12 +5713,14 @@ dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration +I: user script /srv/workspace/pbuilder/31775/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/31775/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/39002 and its subdirectories -I: Current time: Wed Jun 29 00:07:49 -12 2022 -I: pbuilder-time-stamp: 1656504469 +I: removing directory /srv/workspace/pbuilder/31775 and its subdirectories +I: Current time: Thu May 27 20:06:05 +14 2021 +I: pbuilder-time-stamp: 1622095565