Sun Jan 7 06:23:48 UTC 2024 I: starting to build bali-phy/bullseye/amd64 on jenkins on '2024-01-07 06:23' Sun Jan 7 06:23:48 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_27/9426/console.log Sun Jan 7 06:23:48 UTC 2024 I: Downloading source for bullseye/bali-phy=3.6.0+dfsg-1 --2024-01-07 06:23:48-- http://cdn-fastly.deb.debian.org/debian/pool/main/b/bali-phy/bali-phy_3.6.0%2bdfsg-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2227 (2.2K) [text/prs.lines.tag] Saving to: ‘bali-phy_3.6.0+dfsg-1.dsc’ 0K .. 100% 282M=0s 2024-01-07 06:23:48 (282 MB/s) - ‘bali-phy_3.6.0+dfsg-1.dsc’ saved [2227/2227] Sun Jan 7 06:23:48 UTC 2024 I: bali-phy_3.6.0+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: bali-phy Binary: bali-phy Architecture: any Version: 3.6.0+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Benjamin Redelings Homepage: http://www.bali-phy.org Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/bali-phy Vcs-Git: https://salsa.debian.org/med-team/bali-phy.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), meson (>= 0.53), libcairo2-dev, libeigen3-dev, nlohmann-json3-dev, pandoc, libboost-dev, libboost-program-options-dev, libboost-random-dev, libboost-system-dev, libboost-filesystem-dev, libboost-chrono-dev, librange-v3-dev Package-List: bali-phy deb science optional arch=any Checksums-Sha1: 21f7c17a1525101abb71a5d8e17a7cdf3720ab81 1122208 bali-phy_3.6.0+dfsg.orig.tar.xz 6c3fd4c1f2244006bc2a0484d2ad61a17aed81b0 4456 bali-phy_3.6.0+dfsg-1.debian.tar.xz Checksums-Sha256: 137608731c8b201c994f88aab6f79c9f07c9476a95519f7e0de282862305d97e 1122208 bali-phy_3.6.0+dfsg.orig.tar.xz 538f65deb966428102f132d552a05c764e224fd6a8f9b5c62023534723cd37bf 4456 bali-phy_3.6.0+dfsg-1.debian.tar.xz Files: 0b92c2d04d28cb0aa2cee246c25085a8 1122208 bali-phy_3.6.0+dfsg.orig.tar.xz f4d6b106216ee3f6dbcef965adf32ef2 4456 bali-phy_3.6.0+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmAfm/kRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEACg/+JNU44hnI93w5/YMhx+gA43iB9xN9iGff YAkdU4+3+mbh9pSG6kEHQnADC1nlB7EQ49VRRVxz60nteixib79bo0ZFsKu1ZGgI mRjo1LChw3uIVTyebGXdmmqGDIxVo4Ax18nFuzpCEYINeDJmN6fiLRW3QiG5FFDX sHQrS22u+WBJMU8b0Xa5zXfY7Z7b8l78iymDuqEnUWXKUIqQdEHNnMIsw7zCMnnT q57mf+6ItOZJQyy/t45J9QU6YZ3AUalCVJMj4eInuks6qBXeEKanUbG43HCe/QPT GoJ9AwPdC7xn5587PPOeX3UlUPG7L+m4BNwvL3/wM7njkmX+oD/K0PFoRaqEt0BB ia4fBXz6Q0hWrDblo3mj11aNV5TpzCCq1OBP/qoLOPxFhKkqSzNtBBTojs8L69mq IBMsUaRDj+QLvUqbV18HYOAuKry8AYy/cW5ycvUYD0dcEn5ftqKCPIdCYUKZhoou KdLBvBpcgczntr6C8SRrcUyFrFuRnab3CiR01+qwitwAfORxuiuuvO/KTdbScBoO WnHX7LuqEndWCXMhBaUo7s/21D5UcOzXbZvBmsM6FwOuDgn5TQQDkR/JslASgSxi H+ghwq/6S/EHjqy783mTQOzYEqXdmsOXQBvGqK/DadtVN9ZWtLbVJlrigwA7kArV jwTgrZ/baUk= =Dqdy -----END PGP SIGNATURE----- Sun Jan 7 06:23:48 UTC 2024 I: Checking whether the package is not for us Sun Jan 7 06:23:48 UTC 2024 I: Starting 1st build on remote node ionos11-amd64.debian.net. Sun Jan 7 06:23:48 UTC 2024 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Sun Jan 7 06:35:25 UTC 2024 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Jan 6 18:23:50 -12 2024 I: pbuilder-time-stamp: 1704608630 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [bali-phy_3.6.0+dfsg-1.dsc] I: copying [./bali-phy_3.6.0+dfsg.orig.tar.xz] I: copying [./bali-phy_3.6.0+dfsg-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.vEBorYRe/trustedkeys.kbx': General error gpgv: Signature made Sun Feb 7 07:51:21 2021 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./bali-phy_3.6.0+dfsg-1.dsc dpkg-source: info: extracting bali-phy in bali-phy-3.6.0+dfsg dpkg-source: info: unpacking bali-phy_3.6.0+dfsg.orig.tar.xz dpkg-source: info: unpacking bali-phy_3.6.0+dfsg-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3297272/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=15 ' DISTRIBUTION='bullseye' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='b6771e7a8bc94504b058fb578d627e65' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' 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='3297272' PS1='# ' PS2='> ' 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/r-b-build.Ti3Ps53t/pbuilderrc_yyCg --distribution bullseye --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Ti3Ps53t/b1 --logfile b1/build.log bali-phy_3.6.0+dfsg-1.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos11-amd64 6.1.0-17-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.69-1 (2023-12-30) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Mar 27 2022 bash -rwxr-xr-x 3 root root 38984 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38984 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 38984 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 18424 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 43936 Sep 24 2020 cat -rwxr-xr-x 1 root root 72672 Sep 24 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 24 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 24 2020 chown -rwxr-xr-x 1 root root 151168 Sep 24 2020 cp -rwxr-xr-x 1 root root 125560 Dec 10 2020 dash -rwxr-xr-x 1 root root 113664 Sep 24 2020 date -rwxr-xr-x 1 root root 80968 Sep 24 2020 dd -rwxr-xr-x 1 root root 93936 Sep 24 2020 df -rwxr-xr-x 1 root root 147176 Sep 24 2020 dir -rwxr-xr-x 1 root root 84440 Jan 20 2022 dmesg lrwxrwxrwx 1 root root 8 Nov 7 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 7 2019 domainname -> hostname -rwxr-xr-x 1 root root 39712 Sep 24 2020 echo -rwxr-xr-x 1 root root 28 Jan 25 2023 egrep -rwxr-xr-x 1 root root 39680 Sep 24 2020 false -rwxr-xr-x 1 root root 28 Jan 25 2023 fgrep -rwxr-xr-x 1 root root 69032 Jan 20 2022 findmnt -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 203072 Jan 25 2023 grep -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe -rwxr-xr-x 1 root root 98048 Apr 10 2022 gzip -rwxr-xr-x 1 root root 22600 Nov 7 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 24 2020 ln -rwxr-xr-x 1 root root 56952 Feb 7 2020 login -rwxr-xr-x 1 root root 147176 Sep 24 2020 ls -rwxr-xr-x 1 root root 149736 Jan 20 2022 lsblk -rwxr-xr-x 1 root root 85184 Sep 24 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 24 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 24 2020 mktemp -rwxr-xr-x 1 root root 59632 Jan 20 2022 more -rwsr-xr-x 1 root root 55528 Jan 20 2022 mount -rwxr-xr-x 1 root root 18664 Jan 20 2022 mountpoint -rwxr-xr-x 1 root root 147080 Sep 24 2020 mv lrwxrwxrwx 1 root root 8 Nov 7 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Dec 16 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 24 2020 pwd lrwxrwxrwx 1 root root 4 Mar 27 2022 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 24 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 24 2020 rm -rwxr-xr-x 1 root root 52032 Sep 24 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Dec 7 09:30 sh -> dash -rwxr-xr-x 1 root root 43808 Sep 24 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 24 2020 stty -rwsr-xr-x 1 root root 71912 Jan 20 2022 su -rwxr-xr-x 1 root root 39744 Sep 24 2020 sync -rwxr-xr-x 1 root root 531928 Feb 17 2021 tar -rwxr-xr-x 1 root root 14456 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 24 2020 touch -rwxr-xr-x 1 root root 39680 Sep 24 2020 true -rwxr-xr-x 1 root root 14328 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Jan 20 2022 umount -rwxr-xr-x 1 root root 39744 Sep 24 2020 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 147176 Sep 24 2020 vdir -rwxr-xr-x 1 root root 63744 Jan 20 2022 wdctl lrwxrwxrwx 1 root root 8 Nov 7 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp -rwxr-xr-x 1 root root 5898 Apr 10 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce -rwxr-xr-x 1 root root 8049 Apr 10 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew I: user script /srv/workspace/pbuilder/3297272/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), meson (>= 0.53), libcairo2-dev, libeigen3-dev, nlohmann-json3-dev, pandoc, libboost-dev, libboost-program-options-dev, libboost-random-dev, libboost-system-dev, libboost-filesystem-dev, libboost-chrono-dev, librange-v3-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 17743 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on meson (>= 0.53); however: Package meson is not installed. pbuilder-satisfydepends-dummy depends on libcairo2-dev; however: Package libcairo2-dev is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. pbuilder-satisfydepends-dummy depends on nlohmann-json3-dev; however: Package nlohmann-json3-dev is not installed. pbuilder-satisfydepends-dummy depends on pandoc; however: Package pandoc is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-program-options-dev; however: Package libboost-program-options-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-random-dev; however: Package libboost-random-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-system-dev; however: Package libboost-system-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-filesystem-dev; however: Package libboost-filesystem-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-chrono-dev; however: Package libboost-chrono-dev is not installed. pbuilder-satisfydepends-dummy depends on librange-v3-dev; however: Package librange-v3-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblkid-dev{a} libboost-chrono-dev{a} libboost-chrono1.74-dev{a} libboost-chrono1.74.0{a} libboost-dev{a} libboost-filesystem-dev{a} libboost-filesystem1.74-dev{a} libboost-filesystem1.74.0{a} libboost-program-options-dev{a} libboost-program-options1.74-dev{a} libboost-program-options1.74.0{a} libboost-random-dev{a} libboost-random1.74-dev{a} libboost-random1.74.0{a} libboost-system-dev{a} libboost-system1.74-dev{a} libboost-system1.74.0{a} libboost1.74-dev{a} libbrotli-dev{a} libbrotli1{a} libbsd0{a} libcairo-gobject2{a} libcairo-script-interpreter2{a} libcairo2{a} libcairo2-dev{a} libcmark-gfm-extensions0{a} libcmark-gfm0{a} libdebhelper-perl{a} libeigen3-dev{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libffi-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig-dev{a} libfontconfig1{a} libfontconfig1-dev{a} libfreetype-dev{a} libfreetype6{a} libfreetype6-dev{a} libglib2.0-0{a} libglib2.0-bin{a} libglib2.0-data{a} libglib2.0-dev{a} libglib2.0-dev-bin{a} libice-dev{a} libice6{a} libicu67{a} liblzo2-2{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmount-dev{a} libmpdec3{a} libpcre16-3{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix2{a} libpcre3-dev{a} libpcre32-3{a} libpcrecpp0v5{a} libpipeline1{a} libpixman-1-0{a} libpixman-1-dev{a} libpng-dev{a} libpng16-16{a} libpthread-stubs0-dev{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} librange-v3-dev{a} libreadline8{a} libselinux1-dev{a} libsepol1-dev{a} libsigsegv2{a} libsm-dev{a} libsm6{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libx11-6{a} libx11-data{a} libx11-dev{a} libxau-dev{a} libxau6{a} libxcb-render0{a} libxcb-render0-dev{a} libxcb-shm0{a} libxcb-shm0-dev{a} libxcb1{a} libxcb1-dev{a} libxdmcp-dev{a} libxdmcp6{a} libxext-dev{a} libxext6{a} libxml2{a} libxrender-dev{a} libxrender1{a} m4{a} man-db{a} media-types{a} meson{a} ninja-build{a} nlohmann-json3-dev{a} pandoc{a} pandoc-data{a} pkg-config{a} po-debconf{a} python3{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3-pkg-resources{a} python3.9{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} ucf{a} uuid-dev{a} x11-common{a} x11proto-dev{a} x11proto-xext-dev{a} xorg-sgml-doctools{a} xtrans-dev{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl libpng-tools librange-v3-doc lynx shared-mime-info wget xdg-user-dirs 0 packages upgraded, 144 newly installed, 0 to remove and 0 not upgraded. Need to get 78.3 MB of archives. After unpacking 516 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8+deb11u1 [145 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2+deb11u5 [98.2 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 python3-minimal amd64 3.9.2-3 [38.2 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 media-types all 4.0.0 [30.3 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 tzdata all 2021a-1+deb11u10 [286 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3+deb11u1 [273 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3+deb11u1 [128 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3+deb11u1 [69.2 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 ucf all 3.0043 [74.0 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7+deb11u4 [693 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 45 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 fonts-dejavu-core all 2.37-2 [1069 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 fontconfig-config all 2.13.1-4.2 [281 kB] Get: 48 http://deb.debian.org/debian bullseye/main amd64 uuid-dev amd64 2.36.1-8+deb11u1 [99.4 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 libblkid-dev amd64 2.36.1-8+deb11u1 [225 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 libboost1.74-dev amd64 1.74.0-9 [9534 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 libboost-chrono1.74.0 amd64 1.74.0-9 [252 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 libboost-chrono1.74-dev amd64 1.74.0-9 [260 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 libboost-chrono-dev amd64 1.74.0.3 [4960 B] Get: 54 http://deb.debian.org/debian bullseye/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get: 55 http://deb.debian.org/debian bullseye/main amd64 libboost-filesystem1.74.0 amd64 1.74.0-9 [283 kB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 libboost-system1.74.0 amd64 1.74.0-9 [241 kB] Get: 57 http://deb.debian.org/debian bullseye/main amd64 libboost-system1.74-dev amd64 1.74.0-9 [243 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 libboost-filesystem1.74-dev amd64 1.74.0-9 [304 kB] Get: 59 http://deb.debian.org/debian bullseye/main amd64 libboost-filesystem-dev amd64 1.74.0.3 [4368 B] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options1.74.0 amd64 1.74.0-9 [356 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options1.74-dev amd64 1.74.0-9 [386 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 libboost-program-options-dev amd64 1.74.0.3 [4340 B] Get: 63 http://deb.debian.org/debian bullseye/main amd64 libboost-random1.74.0 amd64 1.74.0-9 [251 kB] Get: 64 http://deb.debian.org/debian bullseye/main amd64 libboost-random1.74-dev amd64 1.74.0-9 [254 kB] Get: 65 http://deb.debian.org/debian bullseye/main amd64 libboost-random-dev amd64 1.74.0.3 [4336 B] Get: 66 http://deb.debian.org/debian bullseye/main amd64 libboost-system-dev amd64 1.74.0.3 [4468 B] Get: 67 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 68 http://deb.debian.org/debian bullseye/main amd64 libbrotli-dev amd64 1.0.9-2+b2 [288 kB] Get: 69 http://deb.debian.org/debian bullseye/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB] Get: 70 http://deb.debian.org/debian bullseye/main amd64 libbsd0 amd64 0.11.3-1+deb11u1 [108 kB] Get: 71 http://deb.debian.org/debian bullseye/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB] Get: 72 http://deb.debian.org/debian bullseye/main amd64 libfreetype6 amd64 2.10.4+dfsg-1+deb11u1 [418 kB] Get: 73 http://deb.debian.org/debian bullseye/main amd64 libfontconfig1 amd64 2.13.1-4.2 [347 kB] Get: 74 http://deb.debian.org/debian bullseye/main amd64 libpixman-1-0 amd64 0.40.0-1.1~deb11u1 [543 kB] Get: 75 http://deb.debian.org/debian bullseye/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 76 http://deb.debian.org/debian bullseye/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 77 http://deb.debian.org/debian bullseye/main amd64 libxcb1 amd64 1.14-3 [140 kB] Get: 78 http://deb.debian.org/debian bullseye/main amd64 libx11-data all 2:1.7.2-1+deb11u1 [311 kB] Get: 79 http://deb.debian.org/debian bullseye/main amd64 libx11-6 amd64 2:1.7.2-1+deb11u1 [772 kB] Get: 80 http://deb.debian.org/debian bullseye/main amd64 libxcb-render0 amd64 1.14-3 [111 kB] Get: 81 http://deb.debian.org/debian bullseye/main amd64 libxcb-shm0 amd64 1.14-3 [101 kB] Get: 82 http://deb.debian.org/debian bullseye/main amd64 libxext6 amd64 2:1.3.3-1.1 [52.7 kB] Get: 83 http://deb.debian.org/debian bullseye/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get: 84 http://deb.debian.org/debian bullseye/main amd64 libcairo2 amd64 1.16.0-5 [694 kB] Get: 85 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-0 amd64 2.66.8-1 [1370 kB] Get: 86 http://deb.debian.org/debian bullseye/main amd64 libcairo-gobject2 amd64 1.16.0-5 [125 kB] Get: 87 http://deb.debian.org/debian bullseye/main amd64 liblzo2-2 amd64 2.10-2 [56.9 kB] Get: 88 http://deb.debian.org/debian bullseye/main amd64 libcairo-script-interpreter2 amd64 1.16.0-5 [163 kB] Get: 89 http://deb.debian.org/debian bullseye/main amd64 libexpat1-dev amd64 2.2.10-2+deb11u5 [141 kB] Get: 90 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2+deb11u2 [191 kB] Get: 91 http://deb.debian.org/debian bullseye/main amd64 libpng-dev amd64 1.6.37-3 [298 kB] Get: 92 http://deb.debian.org/debian bullseye/main amd64 libfreetype-dev amd64 2.10.4+dfsg-1+deb11u1 [571 kB] Get: 93 http://deb.debian.org/debian bullseye/main amd64 libfreetype6-dev amd64 2.10.4+dfsg-1+deb11u1 [82.6 kB] Get: 94 http://deb.debian.org/debian bullseye/main amd64 pkg-config amd64 0.29.2-1 [65.1 kB] Get: 95 http://deb.debian.org/debian bullseye/main amd64 libfontconfig-dev amd64 2.13.1-4.2 [368 kB] Get: 96 http://deb.debian.org/debian bullseye/main amd64 libfontconfig1-dev amd64 2.13.1-4.2 [238 kB] Get: 97 http://deb.debian.org/debian bullseye/main amd64 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get: 98 http://deb.debian.org/debian bullseye/main amd64 x11proto-dev all 2020.1-1 [594 kB] Get: 99 http://deb.debian.org/debian bullseye/main amd64 libxau-dev amd64 1:1.0.9-1 [22.9 kB] Get: 100 http://deb.debian.org/debian bullseye/main amd64 libxdmcp-dev amd64 1:1.1.2-3 [42.2 kB] Get: 101 http://deb.debian.org/debian bullseye/main amd64 xtrans-dev all 1.4.0-1 [98.7 kB] Get: 102 http://deb.debian.org/debian bullseye/main amd64 libpthread-stubs0-dev amd64 0.4-1 [5344 B] Get: 103 http://deb.debian.org/debian bullseye/main amd64 libxcb1-dev amd64 1.14-3 [176 kB] Get: 104 http://deb.debian.org/debian bullseye/main amd64 libx11-dev amd64 2:1.7.2-1+deb11u1 [843 kB] Get: 105 http://deb.debian.org/debian bullseye/main amd64 libxrender-dev amd64 1:0.9.10-1 [40.8 kB] Get: 106 http://deb.debian.org/debian bullseye/main amd64 x11proto-xext-dev all 2020.1-1 [3404 B] Get: 107 http://deb.debian.org/debian bullseye/main amd64 libxext-dev amd64 2:1.3.3-1.1 [107 kB] Get: 108 http://deb.debian.org/debian bullseye/main amd64 x11-common all 1:7.7+22 [252 kB] Get: 109 http://deb.debian.org/debian bullseye/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get: 110 http://deb.debian.org/debian bullseye/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get: 111 http://deb.debian.org/debian bullseye/main amd64 libice-dev amd64 2:1.0.10-1 [67.1 kB] Get: 112 http://deb.debian.org/debian bullseye/main amd64 libsm-dev amd64 2:1.2.3-1 [38.0 kB] Get: 113 http://deb.debian.org/debian bullseye/main amd64 libpixman-1-dev amd64 0.40.0-1.1~deb11u1 [561 kB] Get: 114 http://deb.debian.org/debian bullseye/main amd64 libxcb-render0-dev amd64 1.14-3 [114 kB] Get: 115 http://deb.debian.org/debian bullseye/main amd64 libxcb-shm0-dev amd64 1.14-3 [102 kB] Get: 116 http://deb.debian.org/debian bullseye/main amd64 libffi-dev amd64 3.3-6 [56.5 kB] Get: 117 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-data all 2.66.8-1 [1164 kB] Get: 118 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-bin amd64 2.66.8-1 [141 kB] Get: 119 http://deb.debian.org/debian bullseye/main amd64 python3-lib2to3 all 3.9.2-1 [77.8 kB] Get: 120 http://deb.debian.org/debian bullseye/main amd64 python3-distutils all 3.9.2-1 [143 kB] Get: 121 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-dev-bin amd64 2.66.8-1 [179 kB] Get: 122 http://deb.debian.org/debian bullseye/main amd64 libsepol1-dev amd64 3.1-1 [338 kB] Get: 123 http://deb.debian.org/debian bullseye/main amd64 libpcre2-16-0 amd64 10.36-2+deb11u1 [232 kB] Get: 124 http://deb.debian.org/debian bullseye/main amd64 libpcre2-32-0 amd64 10.36-2+deb11u1 [220 kB] Get: 125 http://deb.debian.org/debian bullseye/main amd64 libpcre2-posix2 amd64 10.36-2+deb11u1 [49.1 kB] Get: 126 http://deb.debian.org/debian bullseye/main amd64 libpcre2-dev amd64 10.36-2+deb11u1 [733 kB] Get: 127 http://deb.debian.org/debian bullseye/main amd64 libselinux1-dev amd64 3.1-3 [168 kB] Get: 128 http://deb.debian.org/debian bullseye/main amd64 libmount-dev amd64 2.36.1-8+deb11u1 [78.0 kB] Get: 129 http://deb.debian.org/debian bullseye/main amd64 libpcre16-3 amd64 2:8.39-13 [259 kB] Get: 130 http://deb.debian.org/debian bullseye/main amd64 libpcre32-3 amd64 2:8.39-13 [250 kB] Get: 131 http://deb.debian.org/debian bullseye/main amd64 libpcrecpp0v5 amd64 2:8.39-13 [152 kB] Get: 132 http://deb.debian.org/debian bullseye/main amd64 libpcre3-dev amd64 2:8.39-13 [650 kB] Get: 133 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-dev amd64 2.66.8-1 [1577 kB] Get: 134 http://deb.debian.org/debian bullseye/main amd64 libcairo2-dev amd64 1.16.0-5 [739 kB] Get: 135 http://deb.debian.org/debian bullseye/main amd64 libcmark-gfm0 amd64 0.29.0.gfm.0-6 [117 kB] Get: 136 http://deb.debian.org/debian bullseye/main amd64 libcmark-gfm-extensions0 amd64 0.29.0.gfm.0-6 [46.1 kB] Get: 137 http://deb.debian.org/debian bullseye/main amd64 libeigen3-dev all 3.3.9-2 [858 kB] Get: 138 http://deb.debian.org/debian bullseye/main amd64 librange-v3-dev all 0.11.0-1 [221 kB] Get: 139 http://deb.debian.org/debian bullseye/main amd64 ninja-build amd64 1.10.1-1 [112 kB] Get: 140 http://deb.debian.org/debian bullseye/main amd64 python3-pkg-resources all 52.0.0-4 [190 kB] Get: 141 http://deb.debian.org/debian bullseye/main amd64 meson all 0.56.2-1 [437 kB] Get: 142 http://deb.debian.org/debian bullseye/main amd64 nlohmann-json3-dev all 3.9.1-1 [684 kB] Get: 143 http://deb.debian.org/debian bullseye/main amd64 pandoc-data all 2.9.2.1-1+deb11u1 [377 kB] Get: 144 http://deb.debian.org/debian bullseye/main amd64 pandoc amd64 2.9.2.1-1+deb11u1 [18.5 MB] Fetched 78.3 MB in 5s (16.7 MB/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 ... 17743 files and directories currently installed.) Preparing to unpack .../0-bsdextrautils_2.36.1-8+deb11u1_amd64.deb ... Unpacking bsdextrautils (2.36.1-8+deb11u1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../1-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../2-groff-base_1.22.4-6_amd64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../3-libpipeline1_1.5.3-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../4-man-db_2.9.4-2_amd64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libpython3.9-minimal:amd64. Preparing to unpack .../5-libpython3.9-minimal_3.9.2-1_amd64.deb ... Unpacking libpython3.9-minimal:amd64 (3.9.2-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../6-libexpat1_2.2.10-2+deb11u5_amd64.deb ... Unpacking libexpat1:amd64 (2.2.10-2+deb11u5) ... Selecting previously unselected package python3.9-minimal. Preparing to unpack .../7-python3.9-minimal_3.9.2-1_amd64.deb ... Unpacking python3.9-minimal (3.9.2-1) ... Setting up libpython3.9-minimal:amd64 (3.9.2-1) ... Setting up libexpat1:amd64 (2.2.10-2+deb11u5) ... Setting up python3.9-minimal (3.9.2-1) ... Selecting previously unselected package python3-minimal. (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 ... 18610 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-3_amd64.deb ... Unpacking python3-minimal (3.9.2-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package tzdata. Preparing to unpack .../2-tzdata_2021a-1+deb11u10_all.deb ... Unpacking tzdata (2021a-1+deb11u10) ... Selecting previously unselected package libmpdec3:amd64. Preparing to unpack .../3-libmpdec3_2.5.1-1_amd64.deb ... Unpacking libmpdec3:amd64 (2.5.1-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../5-libreadline8_8.1-1_amd64.deb ... Unpacking libreadline8:amd64 (8.1-1) ... Selecting previously unselected package libpython3.9-stdlib:amd64. Preparing to unpack .../6-libpython3.9-stdlib_3.9.2-1_amd64.deb ... Unpacking libpython3.9-stdlib:amd64 (3.9.2-1) ... Selecting previously unselected package python3.9. Preparing to unpack .../7-python3.9_3.9.2-1_amd64.deb ... Unpacking python3.9 (3.9.2-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../8-libpython3-stdlib_3.9.2-3_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.9.2-3) ... Setting up python3-minimal (3.9.2-3) ... Selecting previously unselected package python3. (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 ... 20893 files and directories currently installed.) Preparing to unpack .../000-python3_3.9.2-3_amd64.deb ... Unpacking python3 (3.9.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../002-libmagic-mgc_1%3a5.39-3+deb11u1_amd64.deb ... Unpacking libmagic-mgc (1:5.39-3+deb11u1) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../003-libmagic1_1%3a5.39-3+deb11u1_amd64.deb ... Unpacking libmagic1:amd64 (1:5.39-3+deb11u1) ... Selecting previously unselected package file. Preparing to unpack .../004-file_1%3a5.39-3+deb11u1_amd64.deb ... Unpacking file (1:5.39-3+deb11u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../005-gettext-base_0.21-4_amd64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package ucf. Preparing to unpack .../006-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../007-libsigsegv2_2.13-1_amd64.deb ... Unpacking libsigsegv2:amd64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../008-m4_1.4.18-5_amd64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../009-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../010-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../011-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../012-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../013-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../014-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../015-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../016-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../017-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../018-libfile-stripnondeterminism-perl_1.12.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.12.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../019-dh-strip-nondeterminism_1.12.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.12.0-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../020-libelf1_0.183-1_amd64.deb ... Unpacking libelf1:amd64 (0.183-1) ... Selecting previously unselected package dwz. Preparing to unpack .../021-dwz_0.13+20210201-1_amd64.deb ... Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package libicu67:amd64. Preparing to unpack .../022-libicu67_67.1-7_amd64.deb ... Unpacking libicu67:amd64 (67.1-7) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../023-libxml2_2.9.10+dfsg-6.7+deb11u4_amd64.deb ... Unpacking libxml2:amd64 (2.9.10+dfsg-6.7+deb11u4) ... Selecting previously unselected package gettext. Preparing to unpack .../024-gettext_0.21-4_amd64.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../025-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../026-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../027-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../028-fonts-dejavu-core_2.37-2_all.deb ... Unpacking fonts-dejavu-core (2.37-2) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../029-fontconfig-config_2.13.1-4.2_all.deb ... Unpacking fontconfig-config (2.13.1-4.2) ... Selecting previously unselected package uuid-dev:amd64. Preparing to unpack .../030-uuid-dev_2.36.1-8+deb11u1_amd64.deb ... Unpacking uuid-dev:amd64 (2.36.1-8+deb11u1) ... Selecting previously unselected package libblkid-dev:amd64. Preparing to unpack .../031-libblkid-dev_2.36.1-8+deb11u1_amd64.deb ... Unpacking libblkid-dev:amd64 (2.36.1-8+deb11u1) ... Selecting previously unselected package libboost1.74-dev:amd64. Preparing to unpack .../032-libboost1.74-dev_1.74.0-9_amd64.deb ... Unpacking libboost1.74-dev:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-chrono1.74.0:amd64. Preparing to unpack .../033-libboost-chrono1.74.0_1.74.0-9_amd64.deb ... Unpacking libboost-chrono1.74.0:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-chrono1.74-dev:amd64. Preparing to unpack .../034-libboost-chrono1.74-dev_1.74.0-9_amd64.deb ... Unpacking libboost-chrono1.74-dev:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-chrono-dev:amd64. Preparing to unpack .../035-libboost-chrono-dev_1.74.0.3_amd64.deb ... Unpacking libboost-chrono-dev:amd64 (1.74.0.3) ... Selecting previously unselected package libboost-dev:amd64. Preparing to unpack .../036-libboost-dev_1.74.0.3_amd64.deb ... Unpacking libboost-dev:amd64 (1.74.0.3) ... Selecting previously unselected package libboost-filesystem1.74.0:amd64. Preparing to unpack .../037-libboost-filesystem1.74.0_1.74.0-9_amd64.deb ... Unpacking libboost-filesystem1.74.0:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-system1.74.0:amd64. Preparing to unpack .../038-libboost-system1.74.0_1.74.0-9_amd64.deb ... Unpacking libboost-system1.74.0:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-system1.74-dev:amd64. Preparing to unpack .../039-libboost-system1.74-dev_1.74.0-9_amd64.deb ... Unpacking libboost-system1.74-dev:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-filesystem1.74-dev:amd64. Preparing to unpack .../040-libboost-filesystem1.74-dev_1.74.0-9_amd64.deb ... Unpacking libboost-filesystem1.74-dev:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-filesystem-dev:amd64. Preparing to unpack .../041-libboost-filesystem-dev_1.74.0.3_amd64.deb ... Unpacking libboost-filesystem-dev:amd64 (1.74.0.3) ... Selecting previously unselected package libboost-program-options1.74.0:amd64. Preparing to unpack .../042-libboost-program-options1.74.0_1.74.0-9_amd64.deb ... Unpacking libboost-program-options1.74.0:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-program-options1.74-dev:amd64. Preparing to unpack .../043-libboost-program-options1.74-dev_1.74.0-9_amd64.deb ... Unpacking libboost-program-options1.74-dev:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-program-options-dev:amd64. Preparing to unpack .../044-libboost-program-options-dev_1.74.0.3_amd64.deb ... Unpacking libboost-program-options-dev:amd64 (1.74.0.3) ... Selecting previously unselected package libboost-random1.74.0:amd64. Preparing to unpack .../045-libboost-random1.74.0_1.74.0-9_amd64.deb ... Unpacking libboost-random1.74.0:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-random1.74-dev:amd64. Preparing to unpack .../046-libboost-random1.74-dev_1.74.0-9_amd64.deb ... Unpacking libboost-random1.74-dev:amd64 (1.74.0-9) ... Selecting previously unselected package libboost-random-dev:amd64. Preparing to unpack .../047-libboost-random-dev_1.74.0.3_amd64.deb ... Unpacking libboost-random-dev:amd64 (1.74.0.3) ... Selecting previously unselected package libboost-system-dev:amd64. Preparing to unpack .../048-libboost-system-dev_1.74.0.3_amd64.deb ... Unpacking libboost-system-dev:amd64 (1.74.0.3) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../049-libbrotli1_1.0.9-2+b2_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b2) ... Selecting previously unselected package libbrotli-dev:amd64. Preparing to unpack .../050-libbrotli-dev_1.0.9-2+b2_amd64.deb ... Unpacking libbrotli-dev:amd64 (1.0.9-2+b2) ... Selecting previously unselected package libmd0:amd64. Preparing to unpack .../051-libmd0_1.0.3-3_amd64.deb ... Unpacking libmd0:amd64 (1.0.3-3) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../052-libbsd0_0.11.3-1+deb11u1_amd64.deb ... Unpacking libbsd0:amd64 (0.11.3-1+deb11u1) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../053-libpng16-16_1.6.37-3_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.37-3) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../054-libfreetype6_2.10.4+dfsg-1+deb11u1_amd64.deb ... Unpacking libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../055-libfontconfig1_2.13.1-4.2_amd64.deb ... Unpacking libfontconfig1:amd64 (2.13.1-4.2) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../056-libpixman-1-0_0.40.0-1.1~deb11u1_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.40.0-1.1~deb11u1) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../057-libxau6_1%3a1.0.9-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.9-1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../058-libxdmcp6_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../059-libxcb1_1.14-3_amd64.deb ... Unpacking libxcb1:amd64 (1.14-3) ... Selecting previously unselected package libx11-data. Preparing to unpack .../060-libx11-data_2%3a1.7.2-1+deb11u1_all.deb ... Unpacking libx11-data (2:1.7.2-1+deb11u1) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../061-libx11-6_2%3a1.7.2-1+deb11u1_amd64.deb ... Unpacking libx11-6:amd64 (2:1.7.2-1+deb11u1) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../062-libxcb-render0_1.14-3_amd64.deb ... Unpacking libxcb-render0:amd64 (1.14-3) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../063-libxcb-shm0_1.14-3_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.14-3) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../064-libxext6_2%3a1.3.3-1.1_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.3-1.1) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../065-libxrender1_1%3a0.9.10-1_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../066-libcairo2_1.16.0-5_amd64.deb ... Unpacking libcairo2:amd64 (1.16.0-5) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../067-libglib2.0-0_2.66.8-1_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.66.8-1) ... Selecting previously unselected package libcairo-gobject2:amd64. Preparing to unpack .../068-libcairo-gobject2_1.16.0-5_amd64.deb ... Unpacking libcairo-gobject2:amd64 (1.16.0-5) ... Selecting previously unselected package liblzo2-2:amd64. Preparing to unpack .../069-liblzo2-2_2.10-2_amd64.deb ... Unpacking liblzo2-2:amd64 (2.10-2) ... Selecting previously unselected package libcairo-script-interpreter2:amd64. Preparing to unpack .../070-libcairo-script-interpreter2_1.16.0-5_amd64.deb ... Unpacking libcairo-script-interpreter2:amd64 (1.16.0-5) ... Selecting previously unselected package libexpat1-dev:amd64. Preparing to unpack .../071-libexpat1-dev_2.2.10-2+deb11u5_amd64.deb ... Unpacking libexpat1-dev:amd64 (2.2.10-2+deb11u5) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../072-zlib1g-dev_1%3a1.2.11.dfsg-2+deb11u2_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-2+deb11u2) ... Selecting previously unselected package libpng-dev:amd64. Preparing to unpack .../073-libpng-dev_1.6.37-3_amd64.deb ... Unpacking libpng-dev:amd64 (1.6.37-3) ... Selecting previously unselected package libfreetype-dev:amd64. Preparing to unpack .../074-libfreetype-dev_2.10.4+dfsg-1+deb11u1_amd64.deb ... Unpacking libfreetype-dev:amd64 (2.10.4+dfsg-1+deb11u1) ... Selecting previously unselected package libfreetype6-dev:amd64. Preparing to unpack .../075-libfreetype6-dev_2.10.4+dfsg-1+deb11u1_amd64.deb ... Unpacking libfreetype6-dev:amd64 (2.10.4+dfsg-1+deb11u1) ... Selecting previously unselected package pkg-config. Preparing to unpack .../076-pkg-config_0.29.2-1_amd64.deb ... Unpacking pkg-config (0.29.2-1) ... Selecting previously unselected package libfontconfig-dev:amd64. Preparing to unpack .../077-libfontconfig-dev_2.13.1-4.2_amd64.deb ... Unpacking libfontconfig-dev:amd64 (2.13.1-4.2) ... Selecting previously unselected package libfontconfig1-dev:amd64. Preparing to unpack .../078-libfontconfig1-dev_2.13.1-4.2_amd64.deb ... Unpacking libfontconfig1-dev:amd64 (2.13.1-4.2) ... Selecting previously unselected package xorg-sgml-doctools. Preparing to unpack .../079-xorg-sgml-doctools_1%3a1.11-1.1_all.deb ... Unpacking xorg-sgml-doctools (1:1.11-1.1) ... Selecting previously unselected package x11proto-dev. Preparing to unpack .../080-x11proto-dev_2020.1-1_all.deb ... Unpacking x11proto-dev (2020.1-1) ... Selecting previously unselected package libxau-dev:amd64. Preparing to unpack .../081-libxau-dev_1%3a1.0.9-1_amd64.deb ... Unpacking libxau-dev:amd64 (1:1.0.9-1) ... Selecting previously unselected package libxdmcp-dev:amd64. Preparing to unpack .../082-libxdmcp-dev_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp-dev:amd64 (1:1.1.2-3) ... Selecting previously unselected package xtrans-dev. Preparing to unpack .../083-xtrans-dev_1.4.0-1_all.deb ... Unpacking xtrans-dev (1.4.0-1) ... Selecting previously unselected package libpthread-stubs0-dev:amd64. Preparing to unpack .../084-libpthread-stubs0-dev_0.4-1_amd64.deb ... Unpacking libpthread-stubs0-dev:amd64 (0.4-1) ... Selecting previously unselected package libxcb1-dev:amd64. Preparing to unpack .../085-libxcb1-dev_1.14-3_amd64.deb ... Unpacking libxcb1-dev:amd64 (1.14-3) ... Selecting previously unselected package libx11-dev:amd64. Preparing to unpack .../086-libx11-dev_2%3a1.7.2-1+deb11u1_amd64.deb ... Unpacking libx11-dev:amd64 (2:1.7.2-1+deb11u1) ... Selecting previously unselected package libxrender-dev:amd64. Preparing to unpack .../087-libxrender-dev_1%3a0.9.10-1_amd64.deb ... Unpacking libxrender-dev:amd64 (1:0.9.10-1) ... Selecting previously unselected package x11proto-xext-dev. Preparing to unpack .../088-x11proto-xext-dev_2020.1-1_all.deb ... Unpacking x11proto-xext-dev (2020.1-1) ... Selecting previously unselected package libxext-dev:amd64. Preparing to unpack .../089-libxext-dev_2%3a1.3.3-1.1_amd64.deb ... Unpacking libxext-dev:amd64 (2:1.3.3-1.1) ... Selecting previously unselected package x11-common. Preparing to unpack .../090-x11-common_1%3a7.7+22_all.deb ... Unpacking x11-common (1:7.7+22) ... Selecting previously unselected package libice6:amd64. Preparing to unpack .../091-libice6_2%3a1.0.10-1_amd64.deb ... Unpacking libice6:amd64 (2:1.0.10-1) ... Selecting previously unselected package libsm6:amd64. Preparing to unpack .../092-libsm6_2%3a1.2.3-1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.3-1) ... Selecting previously unselected package libice-dev:amd64. Preparing to unpack .../093-libice-dev_2%3a1.0.10-1_amd64.deb ... Unpacking libice-dev:amd64 (2:1.0.10-1) ... Selecting previously unselected package libsm-dev:amd64. Preparing to unpack .../094-libsm-dev_2%3a1.2.3-1_amd64.deb ... Unpacking libsm-dev:amd64 (2:1.2.3-1) ... Selecting previously unselected package libpixman-1-dev:amd64. Preparing to unpack .../095-libpixman-1-dev_0.40.0-1.1~deb11u1_amd64.deb ... Unpacking libpixman-1-dev:amd64 (0.40.0-1.1~deb11u1) ... Selecting previously unselected package libxcb-render0-dev:amd64. Preparing to unpack .../096-libxcb-render0-dev_1.14-3_amd64.deb ... Unpacking libxcb-render0-dev:amd64 (1.14-3) ... Selecting previously unselected package libxcb-shm0-dev:amd64. Preparing to unpack .../097-libxcb-shm0-dev_1.14-3_amd64.deb ... Unpacking libxcb-shm0-dev:amd64 (1.14-3) ... Selecting previously unselected package libffi-dev:amd64. Preparing to unpack .../098-libffi-dev_3.3-6_amd64.deb ... Unpacking libffi-dev:amd64 (3.3-6) ... Selecting previously unselected package libglib2.0-data. Preparing to unpack .../099-libglib2.0-data_2.66.8-1_all.deb ... Unpacking libglib2.0-data (2.66.8-1) ... Selecting previously unselected package libglib2.0-bin. Preparing to unpack .../100-libglib2.0-bin_2.66.8-1_amd64.deb ... Unpacking libglib2.0-bin (2.66.8-1) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../101-python3-lib2to3_3.9.2-1_all.deb ... Unpacking python3-lib2to3 (3.9.2-1) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../102-python3-distutils_3.9.2-1_all.deb ... Unpacking python3-distutils (3.9.2-1) ... Selecting previously unselected package libglib2.0-dev-bin. Preparing to unpack .../103-libglib2.0-dev-bin_2.66.8-1_amd64.deb ... Unpacking libglib2.0-dev-bin (2.66.8-1) ... Selecting previously unselected package libsepol1-dev:amd64. Preparing to unpack .../104-libsepol1-dev_3.1-1_amd64.deb ... Unpacking libsepol1-dev:amd64 (3.1-1) ... Selecting previously unselected package libpcre2-16-0:amd64. Preparing to unpack .../105-libpcre2-16-0_10.36-2+deb11u1_amd64.deb ... Unpacking libpcre2-16-0:amd64 (10.36-2+deb11u1) ... Selecting previously unselected package libpcre2-32-0:amd64. Preparing to unpack .../106-libpcre2-32-0_10.36-2+deb11u1_amd64.deb ... Unpacking libpcre2-32-0:amd64 (10.36-2+deb11u1) ... Selecting previously unselected package libpcre2-posix2:amd64. Preparing to unpack .../107-libpcre2-posix2_10.36-2+deb11u1_amd64.deb ... Unpacking libpcre2-posix2:amd64 (10.36-2+deb11u1) ... Selecting previously unselected package libpcre2-dev:amd64. Preparing to unpack .../108-libpcre2-dev_10.36-2+deb11u1_amd64.deb ... Unpacking libpcre2-dev:amd64 (10.36-2+deb11u1) ... Selecting previously unselected package libselinux1-dev:amd64. Preparing to unpack .../109-libselinux1-dev_3.1-3_amd64.deb ... Unpacking libselinux1-dev:amd64 (3.1-3) ... Selecting previously unselected package libmount-dev:amd64. Preparing to unpack .../110-libmount-dev_2.36.1-8+deb11u1_amd64.deb ... Unpacking libmount-dev:amd64 (2.36.1-8+deb11u1) ... Selecting previously unselected package libpcre16-3:amd64. Preparing to unpack .../111-libpcre16-3_2%3a8.39-13_amd64.deb ... Unpacking libpcre16-3:amd64 (2:8.39-13) ... Selecting previously unselected package libpcre32-3:amd64. Preparing to unpack .../112-libpcre32-3_2%3a8.39-13_amd64.deb ... Unpacking libpcre32-3:amd64 (2:8.39-13) ... Selecting previously unselected package libpcrecpp0v5:amd64. Preparing to unpack .../113-libpcrecpp0v5_2%3a8.39-13_amd64.deb ... Unpacking libpcrecpp0v5:amd64 (2:8.39-13) ... Selecting previously unselected package libpcre3-dev:amd64. Preparing to unpack .../114-libpcre3-dev_2%3a8.39-13_amd64.deb ... Unpacking libpcre3-dev:amd64 (2:8.39-13) ... Selecting previously unselected package libglib2.0-dev:amd64. Preparing to unpack .../115-libglib2.0-dev_2.66.8-1_amd64.deb ... Unpacking libglib2.0-dev:amd64 (2.66.8-1) ... Selecting previously unselected package libcairo2-dev:amd64. Preparing to unpack .../116-libcairo2-dev_1.16.0-5_amd64.deb ... Unpacking libcairo2-dev:amd64 (1.16.0-5) ... Selecting previously unselected package libcmark-gfm0:amd64. Preparing to unpack .../117-libcmark-gfm0_0.29.0.gfm.0-6_amd64.deb ... Unpacking libcmark-gfm0:amd64 (0.29.0.gfm.0-6) ... Selecting previously unselected package libcmark-gfm-extensions0:amd64. Preparing to unpack .../118-libcmark-gfm-extensions0_0.29.0.gfm.0-6_amd64.deb ... Unpacking libcmark-gfm-extensions0:amd64 (0.29.0.gfm.0-6) ... Selecting previously unselected package libeigen3-dev. Preparing to unpack .../119-libeigen3-dev_3.3.9-2_all.deb ... Unpacking libeigen3-dev (3.3.9-2) ... Selecting previously unselected package librange-v3-dev. Preparing to unpack .../120-librange-v3-dev_0.11.0-1_all.deb ... Unpacking librange-v3-dev (0.11.0-1) ... Selecting previously unselected package ninja-build. Preparing to unpack .../121-ninja-build_1.10.1-1_amd64.deb ... Unpacking ninja-build (1.10.1-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../122-python3-pkg-resources_52.0.0-4_all.deb ... Unpacking python3-pkg-resources (52.0.0-4) ... Selecting previously unselected package meson. Preparing to unpack .../123-meson_0.56.2-1_all.deb ... Unpacking meson (0.56.2-1) ... Selecting previously unselected package nlohmann-json3-dev. Preparing to unpack .../124-nlohmann-json3-dev_3.9.1-1_all.deb ... Unpacking nlohmann-json3-dev (3.9.1-1) ... Selecting previously unselected package pandoc-data. Preparing to unpack .../125-pandoc-data_2.9.2.1-1+deb11u1_all.deb ... Unpacking pandoc-data (2.9.2.1-1+deb11u1) ... Selecting previously unselected package pandoc. Preparing to unpack .../126-pandoc_2.9.2.1-1+deb11u1_amd64.deb ... Unpacking pandoc (2.9.2.1-1+deb11u1) ... Setting up libboost-chrono1.74.0:amd64 (1.74.0-9) ... Setting up media-types (4.0.0) ... Setting up libpcrecpp0v5:amd64 (2:8.39-13) ... Setting up libpipeline1:amd64 (1.5.3-1) ... Setting up libboost-system1.74.0:amd64 (1.74.0-9) ... Setting up libpixman-1-0:amd64 (0.40.0-1.1~deb11u1) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up libboost1.74-dev:amd64 (1.74.0-9) ... Setting up libpixman-1-dev:amd64 (0.40.0-1.1~deb11u1) ... Setting up bsdextrautils (2.36.1-8+deb11u1) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libpcre16-3:amd64 (2:8.39-13) ... Setting up libicu67:amd64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3+deb11u1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.66.8-1) ... No schema files found: doing nothing. Setting up libboost-program-options1.74.0:amd64 (1.74.0-9) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up libboost-chrono1.74-dev:amd64 (1.74.0-9) ... Setting up x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libmagic1:amd64 (1:5.39-3+deb11u1) ... Setting up libsepol1-dev:amd64 (3.1-1) ... Setting up gettext-base (0.21-4) ... Setting up liblzo2-2:amd64 (2.10-2) ... Setting up libboost-filesystem1.74.0:amd64 (1.74.0-9) ... Setting up file (1:5.39-3+deb11u1) ... Setting up libffi-dev:amd64 (3.3-6) ... Setting up libpthread-stubs0-dev:amd64 (0.4-1) ... Setting up libpcre2-16-0:amd64 (10.36-2+deb11u1) ... Setting up ninja-build (1.10.1-1) ... Setting up libboost-program-options1.74-dev:amd64 (1.74.0-9) ... Setting up tzdata (2021a-1+deb11u10) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Jan 7 06:24:23 UTC 2024. Universal Time is now: Sun Jan 7 06:24:23 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up xtrans-dev (1.4.0-1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libpcre2-32-0:amd64 (10.36-2+deb11u1) ... Setting up libglib2.0-data (2.66.8-1) ... Setting up libexpat1-dev:amd64 (2.2.10-2+deb11u5) ... Setting up libboost-program-options-dev:amd64 (1.74.0.3) ... Setting up libx11-data (2:1.7.2-1+deb11u1) ... Setting up uuid-dev:amd64 (2.36.1-8+deb11u1) ... Setting up libboost-system1.74-dev:amd64 (1.74.0-9) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up libpng16-16:amd64 (1.6.37-3) ... Setting up libpcre32-3:amd64 (2:8.39-13) ... Setting up libboost-random1.74.0:amd64 (1.74.0-9) ... Setting up autopoint (0.21-4) ... Setting up pkg-config (0.29.2-1) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libpcre2-posix2:amd64 (10.36-2+deb11u1) ... Setting up libcmark-gfm0:amd64 (0.29.0.gfm.0-6) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2+deb11u2) ... Setting up librange-v3-dev (0.11.0-1) ... Setting up libmd0:amd64 (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libmpdec3:amd64 (2.5.1-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up xorg-sgml-doctools (1:1.11-1.1) ... Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up libboost-filesystem1.74-dev:amd64 (1.74.0-9) ... Setting up nlohmann-json3-dev (3.9.1-1) ... Setting up pandoc-data (2.9.2.1-1+deb11u1) ... Setting up libbsd0:amd64 (0.11.3-1+deb11u1) ... Setting up libelf1:amd64 (0.183-1) ... Setting up readline-common (8.1-1) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.7+deb11u4) ... Setting up libboost-filesystem-dev:amd64 (1.74.0.3) ... Setting up libbrotli-dev:amd64 (1.0.9-2+b2) ... Setting up x11proto-dev (2020.1-1) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up libblkid-dev:amd64 (2.36.1-8+deb11u1) ... Setting up libice6:amd64 (2:1.0.10-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.14-3) ... Setting up gettext (0.21-4) ... Setting up libxau-dev:amd64 (1:1.0.9-1) ... Setting up libpcre2-dev:amd64 (10.36-2+deb11u1) ... Setting up libice-dev:amd64 (2:1.0.10-1) ... Setting up libtool (2.4.6-15) ... Setting up libxcb-render0:amd64 (1.14-3) ... Setting up libboost-chrono-dev:amd64 (1.74.0.3) ... Setting up libselinux1-dev:amd64 (3.1-3) ... Setting up libpcre3-dev:amd64 (2:8.39-13) ... Setting up libreadline8:amd64 (8.1-1) ... Setting up libboost-system-dev:amd64 (1.74.0.3) ... Setting up libpng-dev:amd64 (1.6.37-3) ... Setting up libglib2.0-bin (2.66.8-1) ... Setting up m4 (1.4.18-5) ... Setting up libxcb-shm0:amd64 (1.14-3) ... Setting up libcmark-gfm-extensions0:amd64 (0.29.0.gfm.0-6) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libxdmcp-dev:amd64 (1:1.1.2-3) ... Setting up pandoc (2.9.2.1-1+deb11u1) ... Setting up libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Setting up libboost-random1.74-dev:amd64 (1.74.0-9) ... Setting up libeigen3-dev (3.3.9-2) ... Setting up ucf (3.0043) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up x11proto-xext-dev (2020.1-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up libx11-6:amd64 (2:1.7.2-1+deb11u1) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libmount-dev:amd64 (2.36.1-8+deb11u1) ... Setting up libpython3.9-stdlib:amd64 (3.9.2-1) ... Setting up libpython3-stdlib:amd64 (3.9.2-3) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libxcb1-dev:amd64 (1.14-3) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libsm-dev:amd64 (2:1.2.3-1) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libx11-dev:amd64 (2:1.7.2-1+deb11u1) ... Setting up libxext6:amd64 (2:1.3.3-1.1) ... Setting up libboost-random-dev:amd64 (1.74.0.3) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libfreetype-dev:amd64 (2.10.4+dfsg-1+deb11u1) ... Setting up dh-autoreconf (20) ... Setting up libxcb-shm0-dev:amd64 (1.14-3) ... Setting up libxcb-render0-dev:amd64 (1.14-3) ... Setting up libxext-dev:amd64 (2:1.3.3-1.1) ... Setting up libfontconfig1:amd64 (2.13.1-4.2) ... Setting up libxrender-dev:amd64 (1:0.9.10-1) ... Setting up python3.9 (3.9.2-1) ... Setting up debhelper (13.3.4) ... Setting up python3 (3.9.2-3) ... Setting up libcairo2:amd64 (1.16.0-5) ... Setting up libfreetype6-dev:amd64 (2.10.4+dfsg-1+deb11u1) ... Setting up libcairo-gobject2:amd64 (1.16.0-5) ... Setting up python3-lib2to3 (3.9.2-1) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up python3-distutils (3.9.2-1) ... Setting up libcairo-script-interpreter2:amd64 (1.16.0-5) ... Setting up libglib2.0-dev-bin (2.66.8-1) ... Setting up libfontconfig-dev:amd64 (2.13.1-4.2) ... Setting up meson (0.56.2-1) ... Setting up libglib2.0-dev:amd64 (2.66.8-1) ... Setting up libcairo2-dev:amd64 (1.16.0-5) ... Setting up libfontconfig1-dev:amd64 (2.13.1-4.2) ... Processing triggers for libc-bin (2.31-13+deb11u6) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/bali-phy-3.6.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../bali-phy_3.6.0+dfsg-1_source.changes dpkg-buildpackage: info: source package bali-phy dpkg-buildpackage: info: source version 3.6.0+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Benjamin Redelings dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=meson dh_auto_clean -O--buildsystem=meson dh_autoreconf_clean -O--buildsystem=meson dh_clean -O--buildsystem=meson debian/rules binary dh binary --buildsystem=meson dh_update_autotools_config -O--buildsystem=meson dh_autoreconf -O--buildsystem=meson debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/bali-phy-3.6.0+dfsg' dh_auto_configure -- -Dextra-tools=false --buildtype=release -Db_ndebug=true cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 meson .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/x86_64-linux-gnu -Dextra-tools=false --buildtype=release -Db_ndebug=true The Meson build system Version: 0.56.2 Source dir: /build/reproducible-path/bali-phy-3.6.0+dfsg Build dir: /build/reproducible-path/bali-phy-3.6.0+dfsg/obj-x86_64-linux-gnu Build type: native build Project name: bali-phy Project version: 3.6.0 Using 'CFLAGS' from environment with value: '-g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3' Using 'LDFLAGS' from environment with value: '-Wl,-z,relro -Wl,-z,now' Using 'CPPFLAGS' from environment with value: '-Wdate-time -D_FORTIFY_SOURCE=2' C compiler for the host machine: cc (gcc 10.2.1 "cc (Debian 10.2.1-6) 10.2.1 20210110") C linker for the host machine: cc ld.bfd 2.35.2 Using 'CXXFLAGS' from environment with value: '-g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3' Using 'LDFLAGS' from environment with value: '-Wl,-z,relro -Wl,-z,now' Using 'CPPFLAGS' from environment with value: '-Wdate-time -D_FORTIFY_SOURCE=2' C++ compiler for the host machine: c++ (gcc 10.2.1 "c++ (Debian 10.2.1-6) 10.2.1 20210110") C++ linker for the host machine: c++ ld.bfd 2.35.2 Using 'CFLAGS' from environment with value: '-g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3' Using 'LDFLAGS' from environment with value: '-Wl,-z,relro -Wl,-z,now' Using 'CPPFLAGS' from environment with value: '-Wdate-time -D_FORTIFY_SOURCE=2' Using 'CXXFLAGS' from environment with value: '-g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3' Using 'LDFLAGS' from environment with value: '-Wl,-z,relro -Wl,-z,now' Using 'CPPFLAGS' from environment with value: '-Wdate-time -D_FORTIFY_SOURCE=2' Host machine cpu family: x86_64 Host machine cpu: x86_64 Has header "sys/resource.h" : YES Has header "fenv.h" : YES Checking for function "log2" : YES Checking for function "feenableexcept" : YES Configuring config.h using configuration Compiler for C++ supports arguments -Wno-sign-compare: YES Compiler for C++ supports arguments -Wno-maybe-uninitialized: YES Compiler for C++ supports arguments -Woverloaded-virtual: YES Compiler for C++ supports arguments -Wstrict-aliasing: YES Compiler for C++ supports arguments -Wno-unknown-pragmas: YES Compiler for C++ supports arguments -fdiagnostics-show-template-tree: YES Compiler for C++ supports arguments -funroll-loops: YES Compiler for C++ supports arguments -fno-math-errno: YES Compiler for C++ supports arguments -fno-signed-zeros: YES Run-time dependency threads found: YES Found pkg-config: /usr/bin/pkg-config (0.29.2) Run-time dependency cairo found: YES 1.16.0 Run-time dependency Boost (found: chrono, filesystem, program_options, random, system) found: YES 1.74.0 (/usr) Run-time dependency eigen3 found: YES 3.3.9 Has header "nlohmann/json.hpp" : YES Library dl found: YES Has header "range/v3/view/take.hpp" : YES Library m found: YES Program pandoc found: YES (/usr/bin/pandoc) Program /build/reproducible-path/bali-phy-3.6.0+dfsg/tests/run-tests.py found: YES (/build/reproducible-path/bali-phy-3.6.0+dfsg/tests/run-tests.py) Build targets in project: 87 bali-phy 3.6.0 Architecture host: linux Libraries BOOST: system Eigen: system nlohmann::json: system range v3: system cairo: system Directories prefix: /usr Configuration optimization: 3 b_ndebug: true debug: False Found ninja-1.10.1 at /usr/bin/ninja make[1]: Leaving directory '/build/reproducible-path/bali-phy-3.6.0+dfsg' dh_auto_build -O--buildsystem=meson cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 ninja -j15 -v [1/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/log-level.cc.o -MF src/util/libutil.a.p/log-level.cc.o.d -o src/util/libutil.a.p/log-level.cc.o -c ../src/util/log-level.cc [2/297] /usr/bin/meson --internal vcstagger ../src/git-version.h.in src/git-version.h '' /build/reproducible-path/bali-phy-3.6.0+dfsg/src @git_message@ '(.*)' /build/reproducible-path/bali-phy-3.6.0+dfsg/src/git log -n1 '--date=format:%b %d %Y %k:%M:%S' '--pretty=format:[%D commit %h] (%cd)' [3/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/demangle.cc.o -MF src/util/libutil.a.p/demangle.cc.o.d -o src/util/libutil.a.p/demangle.cc.o -c ../src/util/demangle.cc [4/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/string_pred.cc.o -MF src/util/libutil.a.p/string_pred.cc.o.d -o src/util/libutil.a.p/string_pred.cc.o -c ../src/util/string/pred.cc [5/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/range.cc.o -MF src/util/libutil.a.p/range.cc.o.d -o src/util/libutil.a.p/range.cc.o -c ../src/util/range.cc [6/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/string_strip.cc.o -MF src/util/libutil.a.p/string_strip.cc.o.d -o src/util/libutil.a.p/string_strip.cc.o -c ../src/util/string/strip.cc [7/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/string_sanitize.cc.o -MF src/util/libutil.a.p/string_sanitize.cc.o.d -o src/util/libutil.a.p/string_sanitize.cc.o -c ../src/util/string/sanitize.cc [8/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/permute.cc.o -MF src/util/libutil.a.p/permute.cc.o.d -o src/util/libutil.a.p/permute.cc.o -c ../src/util/permute.cc [9/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/myexception.cc.o -MF src/util/libutil.a.p/myexception.cc.o.d -o src/util/libutil.a.p/myexception.cc.o -c ../src/util/myexception.cc [10/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/mapping.cc.o -MF src/util/libutil.a.p/mapping.cc.o.d -o src/util/libutil.a.p/mapping.cc.o -c ../src/util/mapping.cc [11/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/rng.cc.o -MF src/util/libutil.a.p/rng.cc.o.d -o src/util/libutil.a.p/rng.cc.o -c ../src/util/rng.cc [12/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tree_newick-tokenizer.cc.o -MF src/libcommon.a.p/tree_newick-tokenizer.cc.o.d -o src/libcommon.a.p/tree_newick-tokenizer.cc.o -c ../src/tree/newick-tokenizer.cc [13/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/time.cc.o -MF src/util/libutil.a.p/time.cc.o.d -o src/util/libutil.a.p/time.cc.o -c ../src/util/time.cc [14/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/file-paths.cc.o -MF src/util/libutil.a.p/file-paths.cc.o.d -o src/util/libutil.a.p/file-paths.cc.o -c ../src/util/file-paths.cc [15/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tree-align_n_indels.cc.o -MF src/libcommon.a.p/tree-align_n_indels.cc.o.d -o src/libcommon.a.p/tree-align_n_indels.cc.o -c ../src/tree-align/n_indels.cc [16/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tree_randomtree.cc.o -MF src/libcommon.a.p/tree_randomtree.cc.o.d -o src/libcommon.a.p/tree_randomtree.cc.o -c ../src/tree/randomtree.cc [17/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/text.cc.o -MF src/util/libutil.a.p/text.cc.o.d -o src/util/libutil.a.p/text.cc.o -c ../src/util/text.cc [18/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/io.cc.o -MF src/util/libutil.a.p/io.cc.o.d -o src/util/libutil.a.p/io.cc.o -c ../src/util/io.cc [19/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/cmdline.cc.o -MF src/util/libutil.a.p/cmdline.cc.o.d -o src/util/libutil.a.p/cmdline.cc.o -c ../src/util/cmdline.cc [20/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tree_tree-util.cc.o -MF src/libcommon.a.p/tree_tree-util.cc.o.d -o src/libcommon.a.p/tree_tree-util.cc.o -c ../src/tree/tree-util.cc [21/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/graph.cc.o -MF src/util/libutil.a.p/graph.cc.o.d -o src/util/libutil.a.p/graph.cc.o -c ../src/util/graph.cc [22/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/file-readers.cc.o -MF src/util/libutil.a.p/file-readers.cc.o.d -o src/util/libutil.a.p/file-readers.cc.o -c ../src/util/file-readers.cc [23/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/sequence_sequence-format.cc.o -MF src/libcommon.a.p/sequence_sequence-format.cc.o.d -o src/libcommon.a.p/sequence_sequence-format.cc.o -c ../src/sequence/sequence-format.cc [24/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/alignment_alignment-random.cc.o -MF src/libcommon.a.p/alignment_alignment-random.cc.o.d -o src/libcommon.a.p/alignment_alignment-random.cc.o -c ../src/alignment/alignment-random.cc [25/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tree_sequencetree.cc.o -MF src/libcommon.a.p/tree_sequencetree.cc.o.d -o src/libcommon.a.p/tree_sequencetree.cc.o -c ../src/tree/sequencetree.cc [26/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/sequence_sequence.cc.o -MF src/libcommon.a.p/sequence_sequence.cc.o.d -o src/libcommon.a.p/sequence_sequence.cc.o -c ../src/sequence/sequence.cc [27/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/ptree.cc.o -MF src/util/libutil.a.p/ptree.cc.o.d -o src/util/libutil.a.p/ptree.cc.o -c ../src/util/ptree.cc [28/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_statistics.cc.o -MF src/libcommon.a.p/tools_statistics.cc.o.d -o src/libcommon.a.p/tools_statistics.cc.o -c ../src/tools/statistics.cc [29/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tree-align_link.cc.o -MF src/libcommon.a.p/tree-align_link.cc.o.d -o src/libcommon.a.p/tree-align_link.cc.o -c ../src/tree-align/link.cc [30/297] c++ -Isrc/util/libutil.a.p -Isrc/util -I../src/util -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/util/libutil.a.p/string_split.cc.o -MF src/util/libutil.a.p/string_split.cc.o.d -o src/util/libutil.a.p/string_split.cc.o -c ../src/util/string/split.cc [31/297] rm -f src/util/libutil.a && gcc-ar csrD src/util/libutil.a src/util/libutil.a.p/string_pred.cc.o src/util/libutil.a.p/string_sanitize.cc.o src/util/libutil.a.p/string_strip.cc.o src/util/libutil.a.p/string_split.cc.o src/util/libutil.a.p/log-level.cc.o src/util/libutil.a.p/io.cc.o src/util/libutil.a.p/graph.cc.o src/util/libutil.a.p/range.cc.o src/util/libutil.a.p/demangle.cc.o src/util/libutil.a.p/mapping.cc.o src/util/libutil.a.p/cmdline.cc.o src/util/libutil.a.p/rng.cc.o src/util/libutil.a.p/permute.cc.o src/util/libutil.a.p/file-paths.cc.o src/util/libutil.a.p/ptree.cc.o src/util/libutil.a.p/text.cc.o src/util/libutil.a.p/myexception.cc.o src/util/libutil.a.p/time.cc.o src/util/libutil.a.p/file-readers.cc.o [32/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/models_path.cc.o -MF src/libcommon.a.p/models_path.cc.o.d -o src/libcommon.a.p/models_path.cc.o -c ../src/models/path.cc [33/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/sequence_alphabet.cc.o -MF src/libcommon.a.p/sequence_alphabet.cc.o.d -o src/libcommon.a.p/sequence_alphabet.cc.o -c ../src/sequence/alphabet.cc [34/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_parsimony.cc.o -MF src/libcommon.a.p/tools_parsimony.cc.o.d -o src/libcommon.a.p/tools_parsimony.cc.o -c ../src/tools/parsimony.cc [35/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tree_tree.cc.o -MF src/libcommon.a.p/tree_tree.cc.o.d -o src/libcommon.a.p/tree_tree.cc.o -c ../src/tree/tree.cc [36/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_read-trees.cc.o -MF src/libcommon.a.p/tools_read-trees.cc.o.d -o src/libcommon.a.p/tools_read-trees.cc.o -c ../src/tools/read-trees.cc [37/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_findroot.cc.o -MF src/libcommon.a.p/tools_findroot.cc.o.d -o src/libcommon.a.p/tools_findroot.cc.o -c ../src/tools/findroot.cc [38/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/alignment_alignment-util.cc.o -MF src/libcommon.a.p/alignment_alignment-util.cc.o.d -o src/libcommon.a.p/alignment_alignment-util.cc.o -c ../src/alignment/alignment-util.cc [39/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_optimize.cc.o -MF src/libcommon.a.p/tools_optimize.cc.o.d -o src/libcommon.a.p/tools_optimize.cc.o -c ../src/tools/optimize.cc [40/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/alignment_index-matrix.cc.o -MF src/libcommon.a.p/alignment_index-matrix.cc.o.d -o src/libcommon.a.p/alignment_index-matrix.cc.o -c ../src/alignment/index-matrix.cc [41/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/object.cc.o -MF src/computation/libcomputation.a.p/object.cc.o.d -o src/computation/libcomputation.a.p/object.cc.o -c ../src/computation/object.cc [42/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_distance-report.cc.o -MF src/libcommon.a.p/tools_distance-report.cc.o.d -o src/libcommon.a.p/tools_distance-report.cc.o -c ../src/tools/distance-report.cc [43/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_tree-dist.cc.o -MF src/libcommon.a.p/tools_tree-dist.cc.o.d -o src/libcommon.a.p/tools_tree-dist.cc.o -c ../src/tools/tree-dist.cc [44/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_partition.cc.o -MF src/libcommon.a.p/tools_partition.cc.o.d -o src/libcommon.a.p/tools_partition.cc.o -c ../src/tools/partition.cc [45/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/closure.cc.o -MF src/computation/libcomputation.a.p/closure.cc.o.d -o src/computation/libcomputation.a.p/closure.cc.o -c ../src/computation/closure.cc [46/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_mctree.cc.o -MF src/libcommon.a.p/tools_mctree.cc.o.d -o src/libcommon.a.p/tools_mctree.cc.o -c ../src/tools/mctree.cc [47/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_distance-methods.cc.o -MF src/libcommon.a.p/tools_distance-methods.cc.o.d -o src/libcommon.a.p/tools_distance-methods.cc.o -c ../src/tools/distance-methods.cc [48/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/preprocess.cc.o -MF src/computation/libcomputation.a.p/preprocess.cc.o.d -o src/computation/libcomputation.a.p/preprocess.cc.o -c ../src/computation/preprocess.cc [49/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_consensus-tree.cc.o -MF src/libcommon.a.p/tools_consensus-tree.cc.o.d -o src/libcommon.a.p/tools_consensus-tree.cc.o -c ../src/tools/consensus-tree.cc [50/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/alignment_alignment.cc.o -MF src/libcommon.a.p/alignment_alignment.cc.o.d -o src/libcommon.a.p/alignment_alignment.cc.o -c ../src/alignment/alignment.cc [51/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/alignment_load.cc.o -MF src/libcommon.a.p/alignment_load.cc.o.d -o src/libcommon.a.p/alignment_load.cc.o -c ../src/alignment/load.cc [52/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/param.cc.o -MF src/computation/libcomputation.a.p/param.cc.o.d -o src/computation/libcomputation.a.p/param.cc.o -c ../src/computation/param.cc [53/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_stats-table.cc.o -MF src/libcommon.a.p/tools_stats-table.cc.o.d -o src/libcommon.a.p/tools_stats-table.cc.o -c ../src/tools/stats-table.cc [54/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/parser_driver.cc.o -MF src/computation/libcomputation.a.p/parser_driver.cc.o.d -o src/computation/libcomputation.a.p/parser_driver.cc.o -c ../src/computation/parser/driver.cc [55/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_inverse.cc.o -MF src/libcommon.a.p/tools_inverse.cc.o.d -o src/libcommon.a.p/tools_inverse.cc.o -c ../src/tools/inverse.cc [56/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/operations.cc.o -MF src/computation/libcomputation.a.p/operations.cc.o.d -o src/computation/libcomputation.a.p/operations.cc.o -c ../src/computation/operations.cc [57/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_constructor.cc.o -MF src/computation/libcomputation.a.p/expression_constructor.cc.o.d -o src/computation/libcomputation.a.p/expression_constructor.cc.o -c ../src/computation/expression/constructor.cc [58/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_operator.cc.o -MF src/computation/libcomputation.a.p/expression_operator.cc.o.d -o src/computation/libcomputation.a.p/expression_operator.cc.o -c ../src/computation/expression/operator.cc [59/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/parser_lexer.cc.o -MF src/computation/libcomputation.a.p/parser_lexer.cc.o.d -o src/computation/libcomputation.a.p/parser_lexer.cc.o -c ../src/computation/parser/lexer.cc [60/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_AST_node.cc.o -MF src/computation/libcomputation.a.p/expression_AST_node.cc.o.d -o src/computation/libcomputation.a.p/expression_AST_node.cc.o -c ../src/computation/expression/AST_node.cc [61/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/context.cc.o -MF src/computation/libcomputation.a.p/context.cc.o.d -o src/computation/libcomputation.a.p/context.cc.o -c ../src/computation/context.cc [62/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_apply.cc.o -MF src/computation/libcomputation.a.p/expression_apply.cc.o.d -o src/computation/libcomputation.a.p/expression_apply.cc.o -c ../src/computation/expression/apply.cc [63/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_expression.cc.o -MF src/computation/libcomputation.a.p/expression_expression.cc.o.d -o src/computation/libcomputation.a.p/expression_expression.cc.o -c ../src/computation/expression/expression.cc [64/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/parser_rename.cc.o -MF src/computation/libcomputation.a.p/parser_rename.cc.o.d -o src/computation/libcomputation.a.p/parser_rename.cc.o -c ../src/computation/parser/rename.cc [65/297] c++ -Isrc/libcommon.a.p -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libcommon.a.p/tools_joint-A-T.cc.o -MF src/libcommon.a.p/tools_joint-A-T.cc.o.d -o src/libcommon.a.p/tools_joint-A-T.cc.o -c ../src/tools/joint-A-T.cc [66/297] rm -f src/libcommon.a && gcc-ar csrD src/libcommon.a src/libcommon.a.p/tree_newick-tokenizer.cc.o src/libcommon.a.p/tree_sequencetree.cc.o src/libcommon.a.p/tree_tree.cc.o src/libcommon.a.p/tree_tree-util.cc.o src/libcommon.a.p/tree_randomtree.cc.o src/libcommon.a.p/tree-align_n_indels.cc.o src/libcommon.a.p/sequence_alphabet.cc.o src/libcommon.a.p/sequence_sequence.cc.o src/libcommon.a.p/sequence_sequence-format.cc.o src/libcommon.a.p/tools_read-trees.cc.o src/libcommon.a.p/alignment_alignment-util.cc.o src/libcommon.a.p/alignment_load.cc.o src/libcommon.a.p/alignment_alignment.cc.o src/libcommon.a.p/alignment_alignment-random.cc.o src/libcommon.a.p/alignment_index-matrix.cc.o src/libcommon.a.p/tree-align_link.cc.o src/libcommon.a.p/models_path.cc.o src/libcommon.a.p/tools_statistics.cc.o src/libcommon.a.p/tools_partition.cc.o src/libcommon.a.p/tools_tree-dist.cc.o src/libcommon.a.p/tools_parsimony.cc.o src/libcommon.a.p/tools_mctree.cc.o src/libcommon.a.p/tools_stats-table.cc.o src/libcommon.a.p/tools_findroot.cc.o src/libcommon.a.p/tools_optimize.cc.o src/libcommon.a.p/tools_distance-report.cc.o src/libcommon.a.p/tools_inverse.cc.o src/libcommon.a.p/tools_joint-A-T.cc.o src/libcommon.a.p/tools_distance-methods.cc.o src/libcommon.a.p/tools_consensus-tree.cc.o [67/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_case.cc.o -MF src/computation/libcomputation.a.p/expression_case.cc.o.d -o src/computation/libcomputation.a.p/expression_case.cc.o -c ../src/computation/expression/case.cc [68/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_substitute.cc.o -MF src/computation/libcomputation.a.p/expression_substitute.cc.o.d -o src/computation/libcomputation.a.p/expression_substitute.cc.o -c ../src/computation/expression/substitute.cc [69/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/parser_desugar-case.cc.o -MF src/computation/libcomputation.a.p/parser_desugar-case.cc.o.d -o src/computation/libcomputation.a.p/parser_desugar-case.cc.o -c ../src/computation/parser/desugar-case.cc [70/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/program.cc.o -MF src/computation/libcomputation.a.p/program.cc.o.d -o src/computation/libcomputation.a.p/program.cc.o -c ../src/computation/program.cc ../src/computation/program.cc: In member function ‘void Program::check_dependencies()’: ../src/computation/program.cc:155:10: warning: unused variable ‘index’ [-Wunused-variable] 155 | int index = find_module(name); | ^~~~~ [71/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_tuple.cc.o -MF src/computation/libcomputation.a.p/expression_tuple.cc.o.d -o src/computation/libcomputation.a.p/expression_tuple.cc.o -c ../src/computation/expression/tuple.cc [72/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_indexify.cc.o -MF src/computation/libcomputation.a.p/expression_indexify.cc.o.d -o src/computation/libcomputation.a.p/expression_indexify.cc.o -c ../src/computation/expression/indexify.cc [73/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_lambda.cc.o -MF src/computation/libcomputation.a.p/expression_lambda.cc.o.d -o src/computation/libcomputation.a.p/expression_lambda.cc.o -c ../src/computation/expression/lambda.cc [74/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_reg_var.cc.o -MF src/computation/libcomputation.a.p/expression_reg_var.cc.o.d -o src/computation/libcomputation.a.p/expression_reg_var.cc.o -c ../src/computation/expression/reg_var.cc [75/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_modifiable.cc.o -MF src/computation/libcomputation.a.p/expression_modifiable.cc.o.d -o src/computation/libcomputation.a.p/expression_modifiable.cc.o -c ../src/computation/expression/modifiable.cc [76/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_random_variable.cc.o -MF src/computation/libcomputation.a.p/expression_random_variable.cc.o.d -o src/computation/libcomputation.a.p/expression_random_variable.cc.o -c ../src/computation/expression/random_variable.cc [77/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_trim.cc.o -MF src/computation/libcomputation.a.p/expression_trim.cc.o.d -o src/computation/libcomputation.a.p/expression_trim.cc.o -c ../src/computation/expression/trim.cc [78/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_var.cc.o -MF src/computation/libcomputation.a.p/expression_var.cc.o.d -o src/computation/libcomputation.a.p/expression_var.cc.o -c ../src/computation/expression/var.cc [79/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_list.cc.o -MF src/computation/libcomputation.a.p/expression_list.cc.o.d -o src/computation/libcomputation.a.p/expression_list.cc.o -c ../src/computation/expression/list.cc [80/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/parser_desugar.cc.o -MF src/computation/libcomputation.a.p/parser_desugar.cc.o.d -o src/computation/libcomputation.a.p/parser_desugar.cc.o -c ../src/computation/parser/desugar.cc [81/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_maybe.cc.o -MF src/computation/libcomputation.a.p/expression_maybe.cc.o.d -o src/computation/libcomputation.a.p/expression_maybe.cc.o -c ../src/computation/expression/maybe.cc [82/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_resolved_symbol.cc.o -MF src/computation/libcomputation.a.p/expression_resolved_symbol.cc.o.d -o src/computation/libcomputation.a.p/expression_resolved_symbol.cc.o -c ../src/computation/expression/resolved_symbol.cc [83/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_bool.cc.o -MF src/computation/libcomputation.a.p/expression_bool.cc.o.d -o src/computation/libcomputation.a.p/expression_bool.cc.o -c ../src/computation/expression/bool.cc [84/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_expression_ref.cc.o -MF src/computation/libcomputation.a.p/expression_expression_ref.cc.o.d -o src/computation/libcomputation.a.p/expression_expression_ref.cc.o -c ../src/computation/expression/expression_ref.cc [85/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_let.cc.o -MF src/computation/libcomputation.a.p/expression_let.cc.o.d -o src/computation/libcomputation.a.p/expression_let.cc.o -c ../src/computation/expression/let.cc [86/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_kind.cc.o -MF src/computation/libcomputation.a.p/expression_kind.cc.o.d -o src/computation/libcomputation.a.p/expression_kind.cc.o -c ../src/computation/expression/kind.cc [87/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/substitution_substitution.cc.o -MF src/libbaliphy.a.p/substitution_substitution.cc.o.d -o src/libbaliphy.a.p/substitution_substitution.cc.o -c ../src/substitution/substitution.cc [88/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/machine_args.cc.o -MF src/computation/libcomputation.a.p/machine_args.cc.o.d -o src/computation/libcomputation.a.p/machine_args.cc.o -c ../src/computation/machine/args.cc [89/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/machine_sums.cc.o -MF src/computation/libcomputation.a.p/machine_sums.cc.o.d -o src/computation/libcomputation.a.p/machine_sums.cc.o -c ../src/computation/machine/sums.cc [90/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/expression_do_block.cc.o -MF src/computation/libcomputation.a.p/expression_do_block.cc.o.d -o src/computation/libcomputation.a.p/expression_do_block.cc.o -c ../src/computation/expression/do_block.cc [91/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/machine_tokens.cc.o -MF src/computation/libcomputation.a.p/machine_tokens.cc.o.d -o src/computation/libcomputation.a.p/machine_tokens.cc.o -c ../src/computation/machine/tokens.cc [92/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/loader.cc.o -MF src/computation/libcomputation.a.p/loader.cc.o.d -o src/computation/libcomputation.a.p/loader.cc.o -c ../src/computation/loader.cc [93/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/machine_gc.cc.o -MF src/computation/libcomputation.a.p/machine_gc.cc.o.d -o src/computation/libcomputation.a.p/machine_gc.cc.o -c ../src/computation/machine/gc.cc [94/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/machine_effects.cc.o -MF src/computation/libcomputation.a.p/machine_effects.cc.o.d -o src/computation/libcomputation.a.p/machine_effects.cc.o -c ../src/computation/machine/effects.cc [95/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/machine_reroot.cc.o -MF src/computation/libcomputation.a.p/machine_reroot.cc.o.d -o src/computation/libcomputation.a.p/machine_reroot.cc.o -c ../src/computation/machine/reroot.cc [96/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/parser_parser.cc.o -MF src/computation/libcomputation.a.p/parser_parser.cc.o.d -o src/computation/libcomputation.a.p/parser_parser.cc.o -c ../src/computation/parser/parser.cc [97/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/dp_dp-engine.cc.o -MF src/libbaliphy.a.p/dp_dp-engine.cc.o.d -o src/libbaliphy.a.p/dp_dp-engine.cc.o -c ../src/dp/dp-engine.cc [98/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/machine_evaluate.cc.o -MF src/computation/libcomputation.a.p/machine_evaluate.cc.o.d -o src/computation/libcomputation.a.p/machine_evaluate.cc.o -c ../src/computation/machine/evaluate.cc [99/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/module.cc.o -MF src/computation/libcomputation.a.p/module.cc.o.d -o src/computation/libcomputation.a.p/module.cc.o -c ../src/computation/module.cc [100/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/dp_dp_hmm.cc.o -MF src/libbaliphy.a.p/dp_dp_hmm.cc.o.d -o src/libbaliphy.a.p/dp_dp_hmm.cc.o -c ../src/dp/dp_hmm.cc [101/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/machine_show_graph.cc.o -MF src/computation/libcomputation.a.p/machine_show_graph.cc.o.d -o src/computation/libcomputation.a.p/machine_show_graph.cc.o -c ../src/computation/machine/show_graph.cc [102/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/optimization_inliner.cc.o -MF src/computation/libcomputation.a.p/optimization_inliner.cc.o.d -o src/computation/libcomputation.a.p/optimization_inliner.cc.o -c ../src/computation/optimization/inliner.cc [103/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/dp_dp-array.cc.o -MF src/libbaliphy.a.p/dp_dp-array.cc.o.d -o src/libbaliphy.a.p/dp_dp-array.cc.o -c ../src/dp/dp-array.cc [104/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/dp_dp-cube.cc.o -MF src/libbaliphy.a.p/dp_dp-cube.cc.o.d -o src/libbaliphy.a.p/dp_dp-cube.cc.o -c ../src/dp/dp-cube.cc [105/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/dp_hmm.cc.o -MF src/libbaliphy.a.p/dp_hmm.cc.o.d -o src/libbaliphy.a.p/dp_hmm.cc.o -c ../src/dp/hmm.cc [106/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/dp_dp-matrix.cc.o -MF src/libbaliphy.a.p/dp_dp-matrix.cc.o.d -o src/libbaliphy.a.p/dp_dp-matrix.cc.o -c ../src/dp/dp-matrix.cc [107/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/dp_3way.cc.o -MF src/libbaliphy.a.p/dp_3way.cc.o.d -o src/libbaliphy.a.p/dp_3way.cc.o -c ../src/dp/3way.cc [108/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/dp_5way.cc.o -MF src/libbaliphy.a.p/dp_5way.cc.o.d -o src/libbaliphy.a.p/dp_5way.cc.o -c ../src/dp/5way.cc [109/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/dp_alignment-sums.cc.o -MF src/libbaliphy.a.p/dp_alignment-sums.cc.o.d -o src/libbaliphy.a.p/dp_alignment-sums.cc.o -c ../src/dp/alignment-sums.cc [110/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/optimization_free-vars.cc.o -MF src/computation/libcomputation.a.p/optimization_free-vars.cc.o.d -o src/computation/libcomputation.a.p/optimization_free-vars.cc.o -c ../src/computation/optimization/free-vars.cc [111/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/optimization_simplifier.cc.o -MF src/computation/libcomputation.a.p/optimization_simplifier.cc.o.d -o src/computation/libcomputation.a.p/optimization_simplifier.cc.o -c ../src/computation/optimization/simplifier.cc [112/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/optimization_occurrence.cc.o -MF src/computation/libcomputation.a.p/optimization_occurrence.cc.o.d -o src/computation/libcomputation.a.p/optimization_occurrence.cc.o -c ../src/computation/optimization/occurrence.cc [113/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/dp_2way.cc.o -MF src/libbaliphy.a.p/dp_2way.cc.o.d -o src/libbaliphy.a.p/dp_2way.cc.o -c ../src/dp/2way.cc [114/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_AIS.cc.o -MF src/libbaliphy.a.p/mcmc_AIS.cc.o.d -o src/libbaliphy.a.p/mcmc_AIS.cc.o -c ../src/mcmc/AIS.cc [115/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/optimization_float-out.cc.o -MF src/computation/libcomputation.a.p/optimization_float-out.cc.o.d -o src/computation/libcomputation.a.p/optimization_float-out.cc.o -c ../src/computation/optimization/float-out.cc [116/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_slice-sampling.cc.o -MF src/libbaliphy.a.p/mcmc_slice-sampling.cc.o.d -o src/libbaliphy.a.p/mcmc_slice-sampling.cc.o -c ../src/mcmc/slice-sampling.cc [117/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_proposals.cc.o -MF src/libbaliphy.a.p/mcmc_proposals.cc.o.d -o src/libbaliphy.a.p/mcmc_proposals.cc.o -c ../src/mcmc/proposals.cc [118/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_moves.cc.o -MF src/libbaliphy.a.p/mcmc_moves.cc.o.d -o src/libbaliphy.a.p/mcmc_moves.cc.o -c ../src/mcmc/moves.cc [119/297] /usr/bin/meson --internal exe --capture doc/pickout.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/pickout.md [120/297] /usr/bin/meson --internal exe --capture doc/cut-range.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/cut-range.md [121/297] /usr/bin/meson --internal exe --capture doc/trees-distances.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/trees-distances.md [122/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/machine_graph_register.cc.o -MF src/computation/libcomputation.a.p/machine_graph_register.cc.o.d -o src/computation/libcomputation.a.p/machine_graph_register.cc.o -c ../src/computation/machine/graph_register.cc [123/297] /usr/bin/meson --internal exe --capture doc/alignment-thin.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-thin.md [124/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_mcmc.cc.o -MF src/libbaliphy.a.p/mcmc_mcmc.cc.o.d -o src/libbaliphy.a.p/mcmc_mcmc.cc.o -c ../src/mcmc/mcmc.cc [125/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/math_pow2.cc.o -MF src/libbaliphy.a.p/math_pow2.cc.o.d -o src/libbaliphy.a.p/math_pow2.cc.o -c ../src/math/pow2.cc [126/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_sample-alignment.cc.o -MF src/libbaliphy.a.p/mcmc_sample-alignment.cc.o.d -o src/libbaliphy.a.p/mcmc_sample-alignment.cc.o -c ../src/mcmc/sample-alignment.cc [127/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_sample-branch-lengths.cc.o -MF src/libbaliphy.a.p/mcmc_sample-branch-lengths.cc.o.d -o src/libbaliphy.a.p/mcmc_sample-branch-lengths.cc.o -c ../src/mcmc/sample-branch-lengths.cc [128/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/math_exponential.cc.o -MF src/libbaliphy.a.p/math_exponential.cc.o.d -o src/libbaliphy.a.p/math_exponential.cc.o -c ../src/math/exponential.cc [129/297] c++ -Isrc/computation/libcomputation.a.p -Isrc/computation -I../src/computation -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -isystem../external/immer -isystemexternal/immer/ -MD -MQ src/computation/libcomputation.a.p/optimization_set-levels.cc.o -MF src/computation/libcomputation.a.p/optimization_set-levels.cc.o.d -o src/computation/libcomputation.a.p/optimization_set-levels.cc.o -c ../src/computation/optimization/set-levels.cc [130/297] rm -f src/computation/libcomputation.a && gcc-ar csrD src/computation/libcomputation.a src/computation/libcomputation.a.p/object.cc.o src/computation/libcomputation.a.p/closure.cc.o src/computation/libcomputation.a.p/program.cc.o src/computation/libcomputation.a.p/preprocess.cc.o src/computation/libcomputation.a.p/module.cc.o src/computation/libcomputation.a.p/loader.cc.o src/computation/libcomputation.a.p/context.cc.o src/computation/libcomputation.a.p/operations.cc.o src/computation/libcomputation.a.p/param.cc.o src/computation/libcomputation.a.p/parser_desugar.cc.o src/computation/libcomputation.a.p/parser_desugar-case.cc.o src/computation/libcomputation.a.p/parser_rename.cc.o src/computation/libcomputation.a.p/parser_driver.cc.o src/computation/libcomputation.a.p/parser_lexer.cc.o src/computation/libcomputation.a.p/parser_parser.cc.o src/computation/libcomputation.a.p/expression_operator.cc.o src/computation/libcomputation.a.p/expression_expression.cc.o src/computation/libcomputation.a.p/expression_constructor.cc.o src/computation/libcomputation.a.p/expression_expression_ref.cc.o src/computation/libcomputation.a.p/expression_AST_node.cc.o src/computation/libcomputation.a.p/expression_apply.cc.o src/computation/libcomputation.a.p/expression_substitute.cc.o src/computation/libcomputation.a.p/expression_indexify.cc.o src/computation/libcomputation.a.p/expression_let.cc.o src/computation/libcomputation.a.p/expression_case.cc.o src/computation/libcomputation.a.p/expression_trim.cc.o src/computation/libcomputation.a.p/expression_tuple.cc.o src/computation/libcomputation.a.p/expression_list.cc.o src/computation/libcomputation.a.p/expression_var.cc.o src/computation/libcomputation.a.p/expression_lambda.cc.o src/computation/libcomputation.a.p/expression_random_variable.cc.o src/computation/libcomputation.a.p/expression_modifiable.cc.o src/computation/libcomputation.a.p/expression_reg_var.cc.o src/computation/libcomputation.a.p/expression_bool.cc.o src/computation/libcomputation.a.p/expression_resolved_symbol.cc.o src/computation/libcomputation.a.p/expression_maybe.cc.o src/computation/libcomputation.a.p/expression_do_block.cc.o src/computation/libcomputation.a.p/machine_args.cc.o src/computation/libcomputation.a.p/machine_tokens.cc.o src/computation/libcomputation.a.p/machine_graph_register.cc.o src/computation/libcomputation.a.p/machine_show_graph.cc.o src/computation/libcomputation.a.p/machine_evaluate.cc.o src/computation/libcomputation.a.p/machine_sums.cc.o src/computation/libcomputation.a.p/machine_gc.cc.o src/computation/libcomputation.a.p/machine_reroot.cc.o src/computation/libcomputation.a.p/machine_effects.cc.o src/computation/libcomputation.a.p/expression_kind.cc.o src/computation/libcomputation.a.p/optimization_free-vars.cc.o src/computation/libcomputation.a.p/optimization_set-levels.cc.o src/computation/libcomputation.a.p/optimization_float-out.cc.o src/computation/libcomputation.a.p/optimization_occurrence.cc.o src/computation/libcomputation.a.p/optimization_inliner.cc.o src/computation/libcomputation.a.p/optimization_simplifier.cc.o [131/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_sample-cube.cc.o -MF src/libbaliphy.a.p/mcmc_sample-cube.cc.o.d -o src/libbaliphy.a.p/mcmc_sample-cube.cc.o -c ../src/mcmc/sample-cube.cc [132/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_sample-node.cc.o -MF src/libbaliphy.a.p/mcmc_sample-node.cc.o.d -o src/libbaliphy.a.p/mcmc_sample-node.cc.o -c ../src/mcmc/sample-node.cc [133/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_sample-two-nodes.cc.o -MF src/libbaliphy.a.p/mcmc_sample-two-nodes.cc.o.d -o src/libbaliphy.a.p/mcmc_sample-two-nodes.cc.o -c ../src/mcmc/sample-two-nodes.cc [134/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/models_site-compression.cc.o -MF src/libbaliphy.a.p/models_site-compression.cc.o.d -o src/libbaliphy.a.p/models_site-compression.cc.o -c ../src/models/site-compression.cc [135/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_sample-topology-NNI.cc.o -MF src/libbaliphy.a.p/mcmc_sample-topology-NNI.cc.o.d -o src/libbaliphy.a.p/mcmc_sample-topology-NNI.cc.o -c ../src/mcmc/sample-topology-NNI.cc [136/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/substitution_parsimony.cc.o -MF src/libbaliphy.a.p/substitution_parsimony.cc.o.d -o src/libbaliphy.a.p/substitution_parsimony.cc.o -c ../src/substitution/parsimony.cc [137/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_sample-tri.cc.o -MF src/libbaliphy.a.p/mcmc_sample-tri.cc.o.d -o src/libbaliphy.a.p/mcmc_sample-tri.cc.o -c ../src/mcmc/sample-tri.cc [138/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/probability_choose.cc.o -MF src/libbaliphy.a.p/probability_choose.cc.o.d -o src/libbaliphy.a.p/probability_choose.cc.o -c ../src/probability/choose.cc [139/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/tree-align_link2.cc.o -MF src/libbaliphy.a.p/tree-align_link2.cc.o.d -o src/libbaliphy.a.p/tree-align_link2.cc.o -c ../src/tree-align/link2.cc [140/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/models_TreeInterface.cc.o -MF src/libbaliphy.a.p/models_TreeInterface.cc.o.d -o src/libbaliphy.a.p/models_TreeInterface.cc.o -c ../src/models/TreeInterface.cc [141/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_logger.cc.o -MF src/libbaliphy.a.p/mcmc_logger.cc.o.d -o src/libbaliphy.a.p/mcmc_logger.cc.o -c ../src/mcmc/logger.cc [142/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_sample-topology-SPR.cc.o -MF src/libbaliphy.a.p/mcmc_sample-topology-SPR.cc.o.d -o src/libbaliphy.a.p/mcmc_sample-topology-SPR.cc.o -c ../src/mcmc/sample-topology-SPR.cc [143/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/mcmc_setup.cc.o -MF src/libbaliphy.a.p/mcmc_setup.cc.o.d -o src/libbaliphy.a.p/mcmc_setup.cc.o -c ../src/mcmc/setup.cc [144/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/math_eigenvalue.cc.o -MF src/libbaliphy.a.p/math_eigenvalue.cc.o.d -o src/libbaliphy.a.p/math_eigenvalue.cc.o -c ../src/math/eigenvalue.cc [145/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/tree-align_n_indels2.cc.o -MF src/libbaliphy.a.p/tree-align_n_indels2.cc.o.d -o src/libbaliphy.a.p/tree-align_n_indels2.cc.o -c ../src/tree-align/n_indels2.cc [146/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/models_unification.cc.o -MF src/libbaliphy.a.p/models_unification.cc.o.d -o src/libbaliphy.a.p/models_unification.cc.o -c ../src/models/unification.cc [147/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/alignment_alignment-util2.cc.o -MF src/libbaliphy.a.p/alignment_alignment-util2.cc.o.d -o src/libbaliphy.a.p/alignment_alignment-util2.cc.o -c ../src/alignment/alignment-util2.cc [148/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/models_parse.cc.o -MF src/libbaliphy.a.p/models_parse.cc.o.d -o src/libbaliphy.a.p/models_parse.cc.o -c ../src/models/parse.cc [149/297] c++ -Isrc/builtins/Data.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Data.so.p/Data.cc.o -MF src/builtins/Data.so.p/Data.cc.o.d -o src/builtins/Data.so.p/Data.cc.o -c ../src/builtins/Data.cc [150/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/imodel_imodel.cc.o -MF src/libbaliphy.a.p/imodel_imodel.cc.o.d -o src/libbaliphy.a.p/imodel_imodel.cc.o -c ../src/imodel/imodel.cc [151/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/version.cc.o -MF src/libbaliphy.a.p/version.cc.o.d -o src/libbaliphy.a.p/version.cc.o -c ../src/version.cc ../src/version.cc:67:8: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 67 | s<<__DATE__<<" "<<__TIME__; | ^~~~~~~~ ../src/version.cc:67:23: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 67 | s<<__DATE__<<" "<<__TIME__; | ^~~~~~~~ [152/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/alignment_alignment-constraint.cc.o -MF src/libbaliphy.a.p/alignment_alignment-constraint.cc.o.d -o src/libbaliphy.a.p/alignment_alignment-constraint.cc.o -c ../src/alignment/alignment-constraint.cc [153/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/tools_parsimony2.cc.o -MF src/libbaliphy.a.p/tools_parsimony2.cc.o.d -o src/libbaliphy.a.p/tools_parsimony2.cc.o -c ../src/tools/parsimony2.cc [154/297] c++ -Isrc/bali-phy/bali-phy.p -Isrc/bali-phy -I../src/bali-phy -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/bali-phy/bali-phy.p/system.cc.o -MF src/bali-phy/bali-phy.p/system.cc.o.d -o src/bali-phy/bali-phy.p/system.cc.o -c ../src/bali-phy/system.cc [155/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/probability_probability.cc.o -MF src/libbaliphy.a.p/probability_probability.cc.o.d -o src/libbaliphy.a.p/probability_probability.cc.o -c ../src/probability/probability.cc [156/297] c++ -o src/builtins/Data.so src/builtins/Data.so.p/Data.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Data.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [157/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/models_typecheck.cc.o -MF src/libbaliphy.a.p/models_typecheck.cc.o.d -o src/libbaliphy.a.p/models_typecheck.cc.o -c ../src/models/typecheck.cc [158/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/models_rules.cc.o -MF src/libbaliphy.a.p/models_rules.cc.o.d -o src/libbaliphy.a.p/models_rules.cc.o -c ../src/models/rules.cc [159/297] c++ -Isrc/bali-phy/bali-phy.p -Isrc/bali-phy -I../src/bali-phy -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/bali-phy/bali-phy.p/paths.cc.o -MF src/bali-phy/bali-phy.p/paths.cc.o.d -o src/bali-phy/bali-phy.p/paths.cc.o -c ../src/bali-phy/paths.cc [160/297] c++ -Isrc/builtins/Array.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Array.so.p/Array.cc.o -MF src/builtins/Array.so.p/Array.cc.o.d -o src/builtins/Array.so.p/Array.cc.o -c ../src/builtins/Array.cc [161/297] c++ -o src/builtins/Array.so src/builtins/Array.so.p/Array.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Array.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [162/297] c++ -Isrc/bali-phy/bali-phy.p -Isrc/bali-phy -I../src/bali-phy -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/bali-phy/bali-phy.p/link-partitions.cc.o -MF src/bali-phy/bali-phy.p/link-partitions.cc.o.d -o src/bali-phy/bali-phy.p/link-partitions.cc.o -c ../src/bali-phy/link-partitions.cc [163/297] c++ -Isrc/builtins/Pair.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Pair.so.p/Pair.cc.o -MF src/builtins/Pair.so.p/Pair.cc.o.d -o src/builtins/Pair.so.p/Pair.cc.o -c ../src/builtins/Pair.cc [164/297] c++ -o src/builtins/Pair.so src/builtins/Pair.so.p/Pair.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Pair.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [165/297] c++ -Isrc/builtins/Prelude.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Prelude.so.p/Prelude.cc.o -MF src/builtins/Prelude.so.p/Prelude.cc.o.d -o src/builtins/Prelude.so.p/Prelude.cc.o -c ../src/builtins/Prelude.cc [166/297] c++ -o src/builtins/Prelude.so src/builtins/Prelude.so.p/Prelude.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Prelude.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [167/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/models_model.cc.o -MF src/libbaliphy.a.p/models_model.cc.o.d -o src/libbaliphy.a.p/models_model.cc.o -c ../src/models/model.cc [168/297] c++ -Isrc/builtins/Modifiables.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Modifiables.so.p/Modifiables.cc.o -MF src/builtins/Modifiables.so.p/Modifiables.cc.o.d -o src/builtins/Modifiables.so.p/Modifiables.cc.o -c ../src/builtins/Modifiables.cc [169/297] c++ -o src/builtins/Modifiables.so src/builtins/Modifiables.so.p/Modifiables.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Modifiables.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [170/297] c++ -Isrc/builtins/Range.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Range.so.p/Range.cc.o -MF src/builtins/Range.so.p/Range.cc.o.d -o src/builtins/Range.so.p/Range.cc.o -c ../src/builtins/Range.cc [171/297] c++ -o src/builtins/Range.so src/builtins/Range.so.p/Range.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Range.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [172/297] c++ -Isrc/builtins/Alphabet.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Alphabet.so.p/Alphabet.cc.o -MF src/builtins/Alphabet.so.p/Alphabet.cc.o.d -o src/builtins/Alphabet.so.p/Alphabet.cc.o -c ../src/builtins/Alphabet.cc [173/297] c++ -Isrc/builtins/Distribution.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Distribution.so.p/Distribution.cc.o -MF src/builtins/Distribution.so.p/Distribution.cc.o.d -o src/builtins/Distribution.so.p/Distribution.cc.o -c ../src/builtins/Distribution.cc [174/297] c++ -o src/builtins/Alphabet.so src/builtins/Alphabet.so.p/Alphabet.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Alphabet.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [175/297] c++ -o src/builtins/Distribution.so src/builtins/Distribution.so.p/Distribution.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Distribution.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [176/297] c++ -Isrc/bali-phy/bali-phy.p -Isrc/bali-phy -I../src/bali-phy -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/bali-phy/bali-phy.p/files.cc.o -MF src/bali-phy/bali-phy.p/files.cc.o.d -o src/bali-phy/bali-phy.p/files.cc.o -c ../src/bali-phy/files.cc [177/297] c++ -Isrc/builtins/PopGen.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/PopGen.so.p/PopGen.cc.o -MF src/builtins/PopGen.so.p/PopGen.cc.o.d -o src/builtins/PopGen.so.p/PopGen.cc.o -c ../src/builtins/PopGen.cc [178/297] c++ -o src/builtins/PopGen.so src/builtins/PopGen.so.p/PopGen.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,PopGen.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [179/297] c++ -Isrc/builtins/Vector.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Vector.so.p/Vector.cc.o -MF src/builtins/Vector.so.p/Vector.cc.o.d -o src/builtins/Vector.so.p/Vector.cc.o -c ../src/builtins/Vector.cc [180/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/models_setup.cc.o -MF src/libbaliphy.a.p/models_setup.cc.o.d -o src/libbaliphy.a.p/models_setup.cc.o -c ../src/models/setup.cc [181/297] c++ -o src/builtins/Vector.so src/builtins/Vector.so.p/Vector.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Vector.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [182/297] c++ -Isrc/builtins/Real.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Real.so.p/Real.cc.o -MF src/builtins/Real.so.p/Real.cc.o.d -o src/builtins/Real.so.p/Real.cc.o -c ../src/builtins/Real.cc [183/297] c++ -o src/builtins/Real.so src/builtins/Real.so.p/Real.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Real.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [184/297] c++ -Isrc/bali-phy/bali-phy.p -Isrc/bali-phy -I../src/bali-phy -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/bali-phy/bali-phy.p/cmd_line.cc.o -MF src/bali-phy/bali-phy.p/cmd_line.cc.o.d -o src/bali-phy/bali-phy.p/cmd_line.cc.o -c ../src/bali-phy/cmd_line.cc [185/297] c++ -Isrc/builtins/Environment.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Environment.so.p/Environment.cc.o -MF src/builtins/Environment.so.p/Environment.cc.o.d -o src/builtins/Environment.so.p/Environment.cc.o -c ../src/builtins/Environment.cc [186/297] c++ -o src/builtins/Environment.so src/builtins/Environment.so.p/Environment.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Environment.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [187/297] c++ -Isrc/builtins/Text.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Text.so.p/Text.cc.o -MF src/builtins/Text.so.p/Text.cc.o.d -o src/builtins/Text.so.p/Text.cc.o -c ../src/builtins/Text.cc [188/297] c++ -o src/builtins/Text.so src/builtins/Text.so.p/Text.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Text.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [189/297] c++ -Isrc/builtins/Alignment.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Alignment.so.p/Alignment.cc.o -MF src/builtins/Alignment.so.p/Alignment.cc.o.d -o src/builtins/Alignment.so.p/Alignment.cc.o -c ../src/builtins/Alignment.cc [190/297] c++ -Isrc/builtins/Bits.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Bits.so.p/Bits.cc.o -MF src/builtins/Bits.so.p/Bits.cc.o.d -o src/builtins/Bits.so.p/Bits.cc.o -c ../src/builtins/Bits.cc [191/297] c++ -o src/builtins/Bits.so src/builtins/Bits.so.p/Bits.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Bits.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [192/297] c++ -o src/builtins/Alignment.so src/builtins/Alignment.so.p/Alignment.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Alignment.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [193/297] c++ -Isrc/builtins/SModel.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/SModel.so.p/SModel.cc.o -MF src/builtins/SModel.so.p/SModel.cc.o.d -o src/builtins/SModel.so.p/SModel.cc.o -c ../src/builtins/SModel.cc [194/297] c++ -Isrc/builtins/Char.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Char.so.p/Char.cc.o -MF src/builtins/Char.so.p/Char.cc.o.d -o src/builtins/Char.so.p/Char.cc.o -c ../src/builtins/Char.cc [195/297] c++ -o src/builtins/SModel.so src/builtins/SModel.so.p/SModel.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,SModel.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [196/297] c++ -o src/builtins/Char.so src/builtins/Char.so.p/Char.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Char.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [197/297] c++ -Isrc/builtins/MCMC.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/MCMC.so.p/MCMC.cc.o -MF src/builtins/MCMC.so.p/MCMC.cc.o.d -o src/builtins/MCMC.so.p/MCMC.cc.o -c ../src/builtins/MCMC.cc [198/297] c++ -o src/builtins/MCMC.so src/builtins/MCMC.so.p/MCMC.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,MCMC.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [199/297] c++ -Isrc/bali-phy/bali-phy.p -Isrc/bali-phy -I../src/bali-phy -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/bali-phy/bali-phy.p/bali-phy.cc.o -MF src/bali-phy/bali-phy.p/bali-phy.cc.o.d -o src/bali-phy/bali-phy.p/bali-phy.cc.o -c ../src/bali-phy/bali-phy.cc ../src/bali-phy/bali-phy.cc: In function ‘void report_mem()’: ../src/bali-phy/bali-phy.cc:122:9: warning: ignoring return value of ‘int system(const char*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 122 | system(cmd.str().c_str()); | ~~~~~~^~~~~~~~~~~~~~~~~~~ [200/297] c++ -Isrc/bali-phy/bali-phy.p -Isrc/bali-phy -I../src/bali-phy -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/bali-phy/bali-phy.p/loggers.cc.o -MF src/bali-phy/bali-phy.p/loggers.cc.o.d -o src/bali-phy/bali-phy.p/loggers.cc.o -c ../src/bali-phy/loggers.cc [201/297] c++ -Isrc/builtins/Foreign.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/Foreign.so.p/Foreign.cc.o -MF src/builtins/Foreign.so.p/Foreign.cc.o.d -o src/builtins/Foreign.so.p/Foreign.cc.o -c ../src/builtins/Foreign.cc [202/297] c++ -o src/builtins/Foreign.so src/builtins/Foreign.so.p/Foreign.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,Foreign.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [203/297] c++ -Isrc/bali-phy/bali-phy.p -Isrc/bali-phy -I../src/bali-phy -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/bali-phy/bali-phy.p/help.cc.o -MF src/bali-phy/bali-phy.p/help.cc.o.d -o src/bali-phy/bali-phy.p/help.cc.o -c ../src/bali-phy/help.cc [204/297] c++ -Isrc/model_P.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/model_P.p/tools_model_P.cc.o -MF src/model_P.p/tools_model_P.cc.o.d -o src/model_P.p/tools_model_P.cc.o -c ../src/tools/model_P.cc [205/297] c++ -o src/model_P src/model_P.p/tools_model_P.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [206/297] c++ -Isrc/libbaliphy.a.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/libbaliphy.a.p/models_parameters.cc.o -MF src/libbaliphy.a.p/models_parameters.cc.o.d -o src/libbaliphy.a.p/models_parameters.cc.o -c ../src/models/parameters.cc [207/297] c++ -Isrc/stats-select.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/stats-select.p/tools_stats-select.cc.o -MF src/stats-select.p/tools_stats-select.cc.o.d -o src/stats-select.p/tools_stats-select.cc.o -c ../src/tools/stats-select.cc [208/297] rm -f src/libbaliphy.a && gcc-ar csrD src/libbaliphy.a src/libbaliphy.a.p/dp_dp_hmm.cc.o src/libbaliphy.a.p/dp_hmm.cc.o src/libbaliphy.a.p/dp_dp-engine.cc.o src/libbaliphy.a.p/dp_dp-array.cc.o src/libbaliphy.a.p/dp_dp-matrix.cc.o src/libbaliphy.a.p/dp_dp-cube.cc.o src/libbaliphy.a.p/dp_2way.cc.o src/libbaliphy.a.p/dp_3way.cc.o src/libbaliphy.a.p/dp_5way.cc.o src/libbaliphy.a.p/dp_alignment-sums.cc.o src/libbaliphy.a.p/mcmc_mcmc.cc.o src/libbaliphy.a.p/mcmc_proposals.cc.o src/libbaliphy.a.p/mcmc_slice-sampling.cc.o src/libbaliphy.a.p/mcmc_AIS.cc.o src/libbaliphy.a.p/mcmc_logger.cc.o src/libbaliphy.a.p/mcmc_moves.cc.o src/libbaliphy.a.p/mcmc_sample-branch-lengths.cc.o src/libbaliphy.a.p/mcmc_sample-alignment.cc.o src/libbaliphy.a.p/mcmc_sample-topology-SPR.cc.o src/libbaliphy.a.p/mcmc_sample-topology-NNI.cc.o src/libbaliphy.a.p/mcmc_sample-two-nodes.cc.o src/libbaliphy.a.p/mcmc_sample-node.cc.o src/libbaliphy.a.p/mcmc_sample-cube.cc.o src/libbaliphy.a.p/mcmc_sample-tri.cc.o src/libbaliphy.a.p/mcmc_setup.cc.o src/libbaliphy.a.p/substitution_substitution.cc.o src/libbaliphy.a.p/substitution_parsimony.cc.o src/libbaliphy.a.p/math_exponential.cc.o src/libbaliphy.a.p/math_eigenvalue.cc.o src/libbaliphy.a.p/math_pow2.cc.o src/libbaliphy.a.p/models_parameters.cc.o src/libbaliphy.a.p/models_site-compression.cc.o src/libbaliphy.a.p/models_TreeInterface.cc.o src/libbaliphy.a.p/models_setup.cc.o src/libbaliphy.a.p/models_rules.cc.o src/libbaliphy.a.p/models_parse.cc.o src/libbaliphy.a.p/models_typecheck.cc.o src/libbaliphy.a.p/models_unification.cc.o src/libbaliphy.a.p/models_model.cc.o src/libbaliphy.a.p/tree-align_link2.cc.o src/libbaliphy.a.p/probability_choose.cc.o src/libbaliphy.a.p/probability_probability.cc.o src/libbaliphy.a.p/imodel_imodel.cc.o src/libbaliphy.a.p/alignment_alignment-constraint.cc.o src/libbaliphy.a.p/alignment_alignment-util2.cc.o src/libbaliphy.a.p/tree-align_n_indels2.cc.o src/libbaliphy.a.p/tools_parsimony2.cc.o src/libbaliphy.a.p/version.cc.o [209/297] c++ -o src/stats-select src/stats-select.p/tools_stats-select.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [210/297] c++ -Isrc/alignment-translate.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-translate.p/tools_alignment-translate.cc.o -MF src/alignment-translate.p/tools_alignment-translate.cc.o.d -o src/alignment-translate.p/tools_alignment-translate.cc.o -c ../src/tools/alignment-translate.cc [211/297] c++ -Isrc/statreport.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/statreport.p/tools_statreport.cc.o -MF src/statreport.p/tools_statreport.cc.o.d -o src/statreport.p/tools_statreport.cc.o -c ../src/tools/statreport.cc [212/297] c++ -Isrc/bali-phy/bali-phy.p -Isrc/bali-phy -I../src/bali-phy -I. -I.. -Isrc -I../src -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/bali-phy/bali-phy.p/A-T-model.cc.o -MF src/bali-phy/bali-phy.p/A-T-model.cc.o.d -o src/bali-phy/bali-phy.p/A-T-model.cc.o -c ../src/bali-phy/A-T-model.cc [213/297] c++ -o src/alignment-translate src/alignment-translate.p/tools_alignment-translate.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [214/297] c++ -o src/statreport src/statreport.p/tools_statreport.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [215/297] c++ -Isrc/alignment-chop-internal.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-chop-internal.p/tools_alignment-chop-internal.cc.o -MF src/alignment-chop-internal.p/tools_alignment-chop-internal.cc.o.d -o src/alignment-chop-internal.p/tools_alignment-chop-internal.cc.o -c ../src/tools/alignment-chop-internal.cc [216/297] c++ -Isrc/alignment-indices.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-indices.p/tools_alignment-indices.cc.o -MF src/alignment-indices.p/tools_alignment-indices.cc.o.d -o src/alignment-indices.p/tools_alignment-indices.cc.o -c ../src/tools/alignment-indices.cc [217/297] c++ -o src/alignment-chop-internal src/alignment-chop-internal.p/tools_alignment-chop-internal.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [218/297] c++ -o src/alignment-indices src/alignment-indices.p/tools_alignment-indices.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [219/297] c++ -Isrc/alignment-gild.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-gild.p/tools_alignment-gild.cc.o -MF src/alignment-gild.p/tools_alignment-gild.cc.o.d -o src/alignment-gild.p/tools_alignment-gild.cc.o -c ../src/tools/alignment-gild.cc [220/297] c++ -Isrc/alignment-find.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-find.p/tools_alignment-find.cc.o -MF src/alignment-find.p/tools_alignment-find.cc.o.d -o src/alignment-find.p/tools_alignment-find.cc.o -c ../src/tools/alignment-find.cc [221/297] c++ -Isrc/alignment-info.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-info.p/tools_alignment-info.cc.o -MF src/alignment-info.p/tools_alignment-info.cc.o.d -o src/alignment-info.p/tools_alignment-info.cc.o -c ../src/tools/alignment-info.cc [222/297] c++ -o src/alignment-gild src/alignment-gild.p/tools_alignment-gild.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [223/297] c++ -Isrc/builtins/SMC.so.p -Isrc/builtins -I../src/builtins -I../src/util/include -I. -I.. -Isrc -I../src -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -isystem/usr/include/eigen3 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/builtins/SMC.so.p/SMC.cc.o -MF src/builtins/SMC.so.p/SMC.cc.o.d -o src/builtins/SMC.so.p/SMC.cc.o -c ../src/builtins/SMC.cc [224/297] c++ -Isrc/tree-mean-lengths.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/tree-mean-lengths.p/tools_tree-mean-lengths.cc.o -MF src/tree-mean-lengths.p/tools_tree-mean-lengths.cc.o.d -o src/tree-mean-lengths.p/tools_tree-mean-lengths.cc.o -c ../src/tools/tree-mean-lengths.cc [225/297] c++ -Isrc/mctree-mean-lengths.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/mctree-mean-lengths.p/tools_mctree-mean-lengths.cc.o -MF src/mctree-mean-lengths.p/tools_mctree-mean-lengths.cc.o.d -o src/mctree-mean-lengths.p/tools_mctree-mean-lengths.cc.o -c ../src/tools/mctree-mean-lengths.cc [226/297] c++ -o src/alignment-find src/alignment-find.p/tools_alignment-find.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [227/297] c++ -o src/builtins/SMC.so src/builtins/SMC.so.p/SMC.cc.o -Wl,--as-needed -Wl,--allow-shlib-undefined -Wl,-O1 -shared -fPIC -Wl,--start-group -Wl,-soname,SMC.so -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -Wl,--end-group [228/297] c++ -o src/tree-mean-lengths src/tree-mean-lengths.p/tools_tree-mean-lengths.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [229/297] c++ -o src/alignment-info src/alignment-info.p/tools_alignment-info.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [230/297] c++ -o src/mctree-mean-lengths src/mctree-mean-lengths.p/tools_mctree-mean-lengths.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [231/297] c++ -Isrc/alignment-consensus.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-consensus.p/tools_alignment-consensus.cc.o -MF src/alignment-consensus.p/tools_alignment-consensus.cc.o.d -o src/alignment-consensus.p/tools_alignment-consensus.cc.o -c ../src/tools/alignment-consensus.cc [232/297] c++ -o src/bali-phy/bali-phy src/bali-phy/bali-phy.p/link-partitions.cc.o src/bali-phy/bali-phy.p/bali-phy.cc.o src/bali-phy/bali-phy.p/help.cc.o src/bali-phy/bali-phy.p/A-T-model.cc.o src/bali-phy/bali-phy.p/files.cc.o src/bali-phy/bali-phy.p/loggers.cc.o src/bali-phy/bali-phy.p/system.cc.o src/bali-phy/bali-phy.p/cmd_line.cc.o src/bali-phy/bali-phy.p/paths.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -Wl,-export-dynamic -Wl,--whole-archive -Wl,--start-group src/util/libutil.a src/libcommon.a src/computation/libcomputation.a src/libbaliphy.a -Wl,--no-whole-archive -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -ldl -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [233/297] c++ -Isrc/alignment-draw.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-draw.p/tools_colors.cc.o -MF src/alignment-draw.p/tools_colors.cc.o.d -o src/alignment-draw.p/tools_colors.cc.o -c ../src/tools/colors.cc [234/297] c++ -o src/alignment-consensus src/alignment-consensus.p/tools_alignment-consensus.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [235/297] c++ -Isrc/trees-bootstrap.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/trees-bootstrap.p/tools_bootstrap.cc.o -MF src/trees-bootstrap.p/tools_bootstrap.cc.o.d -o src/trees-bootstrap.p/tools_bootstrap.cc.o -c ../src/tools/bootstrap.cc [236/297] c++ -Isrc/alignment-cat.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-cat.p/tools_alignment-cat.cc.o -MF src/alignment-cat.p/tools_alignment-cat.cc.o.d -o src/alignment-cat.p/tools_alignment-cat.cc.o -c ../src/tools/alignment-cat.cc [237/297] c++ -Isrc/pickout.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/pickout.p/tools_pickout.cc.o -MF src/pickout.p/tools_pickout.cc.o.d -o src/pickout.p/tools_pickout.cc.o -c ../src/tools/pickout.cc [238/297] c++ -o src/pickout src/pickout.p/tools_pickout.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [239/297] c++ -o src/alignment-cat src/alignment-cat.p/tools_alignment-cat.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [240/297] c++ -Isrc/trees-to-SRQ.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/trees-to-SRQ.p/tools_trees-to-SRQ.cc.o -MF src/trees-to-SRQ.p/tools_trees-to-SRQ.cc.o.d -o src/trees-to-SRQ.p/tools_trees-to-SRQ.cc.o -c ../src/tools/trees-to-SRQ.cc [241/297] c++ -Isrc/alignment-max.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-max.p/tools_alignment-max.cc.o -MF src/alignment-max.p/tools_alignment-max.cc.o.d -o src/alignment-max.p/tools_alignment-max.cc.o -c ../src/tools/alignment-max.cc [242/297] c++ -o src/trees-to-SRQ src/trees-to-SRQ.p/tools_trees-to-SRQ.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [243/297] c++ -o src/alignment-max src/alignment-max.p/tools_alignment-max.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [244/297] /usr/bin/meson --internal exe --capture doc/bali-phy.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/bali-phy.md [245/297] /usr/bin/meson --internal exe --capture doc/model_P.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/model_P.md [246/297] /usr/bin/meson --internal exe --capture doc/statreport.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/statreport.md [247/297] /usr/bin/meson --internal exe --capture doc/stats-select.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/stats-select.md [248/297] /usr/bin/meson --internal exe --capture doc/alignment-gild.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-gild.md [249/297] /usr/bin/meson --internal exe --capture doc/alignment-consensus.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-consensus.md [250/297] /usr/bin/meson --internal exe --capture doc/alignment-chop-internal.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-chop-internal.md [251/297] /usr/bin/meson --internal exe --capture doc/alignment-max.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-max.md [252/297] c++ -Isrc/cut-range.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/cut-range.p/tools_cut-range.cc.o -MF src/cut-range.p/tools_cut-range.cc.o.d -o src/cut-range.p/tools_cut-range.cc.o -c ../src/tools/cut-range.cc [253/297] c++ -o src/cut-range src/cut-range.p/tools_cut-range.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [254/297] /usr/bin/meson --internal exe --capture doc/alignment-indices.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-indices.md [255/297] /usr/bin/meson --internal exe --capture doc/alignment-info.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-info.md [256/297] /usr/bin/meson --internal exe --capture doc/alignment-cat.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-cat.md [257/297] /usr/bin/meson --internal exe --capture doc/alignment-translate.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-translate.md [258/297] c++ -Isrc/trees-consensus.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/trees-consensus.p/tools_trees-consensus.cc.o -MF src/trees-consensus.p/tools_trees-consensus.cc.o.d -o src/trees-consensus.p/tools_trees-consensus.cc.o -c ../src/tools/trees-consensus.cc [259/297] /usr/bin/meson --internal exe --capture doc/trees-consensus.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/trees-consensus.md [260/297] /usr/bin/meson --internal exe --capture doc/tree-mean-lengths.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/tree-mean-lengths.md [261/297] /usr/bin/meson --internal exe --capture doc/alignment-find.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-find.md [262/297] /usr/bin/meson --internal exe --capture doc/trees-to-SRQ.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/trees-to-SRQ.md [263/297] /usr/bin/meson --internal exe --capture doc/mctree-mean-lengths.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/mctree-mean-lengths.md [264/297] c++ -o src/trees-consensus src/trees-consensus.p/tools_trees-consensus.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [265/297] /usr/bin/meson --internal exe --capture doc/alignments-diff.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignments-diff.md [266/297] /usr/bin/meson --internal exe --capture doc/tree-tool.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/tree-tool.md [267/297] /usr/bin/meson --internal exe --capture doc/alignment-distances.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-distances.md [268/297] c++ -Isrc/tree-tool.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/tree-tool.p/tools_tree-tool.cc.o -MF src/tree-tool.p/tools_tree-tool.cc.o.d -o src/tree-tool.p/tools_tree-tool.cc.o -c ../src/tools/tree-tool.cc [269/297] /usr/bin/meson --internal exe --capture doc/alignment-draw.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/alignment-draw.md [270/297] /usr/bin/meson --internal exe --capture doc/trees-bootstrap.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/trees-bootstrap.md [271/297] /usr/bin/meson --internal exe --capture doc/draw-tree.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/draw-tree.md [272/297] /usr/bin/meson --internal exe --capture doc/extract-ancestors.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/extract-ancestors.md [273/297] c++ -o src/tree-tool src/tree-tool.p/tools_tree-tool.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [274/297] /usr/bin/meson --internal exe --capture doc/bali-subsample.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/bali-subsample.md [275/297] /usr/bin/meson --internal exe --capture doc/summarize-ancestors.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/summarize-ancestors.md [276/297] /usr/bin/meson --internal exe --capture doc/bali-phy-pkg.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/bali-phy-pkg.md [277/297] /usr/bin/meson --internal exe --capture doc/bp-analyze.1 -- /usr/bin/pandoc -s -t man -f markdown-smart ../doc/man/bp-analyze.md [278/297] c++ -Isrc/alignment-draw.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-draw.p/tools_alignment-draw.cc.o -MF src/alignment-draw.p/tools_alignment-draw.cc.o.d -o src/alignment-draw.p/tools_alignment-draw.cc.o -c ../src/tools/alignment-draw.cc [279/297] c++ -o src/alignment-draw src/alignment-draw.p/tools_alignment-draw.cc.o src/alignment-draw.p/tools_colors.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [280/297] c++ -Isrc/bali-subsample.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/bali-subsample.p/tools_subsample.cc.o -MF src/bali-subsample.p/tools_subsample.cc.o.d -o src/bali-subsample.p/tools_subsample.cc.o -c ../src/tools/subsample.cc [281/297] c++ -o src/bali-subsample src/bali-subsample.p/tools_subsample.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [282/297] c++ -Isrc/trees-distances.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/trees-distances.p/tools_trees-distances.cc.o -MF src/trees-distances.p/tools_trees-distances.cc.o.d -o src/trees-distances.p/tools_trees-distances.cc.o -c ../src/tools/trees-distances.cc [283/297] c++ -o src/trees-distances src/trees-distances.p/tools_trees-distances.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [284/297] c++ -Isrc/alignment-thin.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-thin.p/tools_alignment-thin.cc.o -MF src/alignment-thin.p/tools_alignment-thin.cc.o.d -o src/alignment-thin.p/tools_alignment-thin.cc.o -c ../src/tools/alignment-thin.cc [285/297] c++ -Isrc/alignments-diff.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignments-diff.p/tools_alignments-diff.cc.o -MF src/alignments-diff.p/tools_alignments-diff.cc.o.d -o src/alignments-diff.p/tools_alignments-diff.cc.o -c ../src/tools/alignments-diff.cc [286/297] c++ -Isrc/trees-bootstrap.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/trees-bootstrap.p/tools_trees-bootstrap.cc.o -MF src/trees-bootstrap.p/tools_trees-bootstrap.cc.o.d -o src/trees-bootstrap.p/tools_trees-bootstrap.cc.o -c ../src/tools/trees-bootstrap.cc [287/297] c++ -o src/alignment-thin src/alignment-thin.p/tools_alignment-thin.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [288/297] c++ -o src/alignments-diff src/alignments-diff.p/tools_alignments-diff.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [289/297] c++ -o src/trees-bootstrap src/trees-bootstrap.p/tools_trees-bootstrap.cc.o src/trees-bootstrap.p/tools_bootstrap.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [290/297] c++ -Isrc/alignment-distances.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/alignment-distances.p/tools_alignment-distances.cc.o -MF src/alignment-distances.p/tools_alignment-distances.cc.o.d -o src/alignment-distances.p/tools_alignment-distances.cc.o -c ../src/tools/alignment-distances.cc [291/297] c++ -o src/alignment-distances src/alignment-distances.p/tools_alignment-distances.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [292/297] c++ -Isrc/extract-ancestors.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/extract-ancestors.p/tools_extract-ancestors.cc.o -MF src/extract-ancestors.p/tools_extract-ancestors.cc.o.d -o src/extract-ancestors.p/tools_extract-ancestors.cc.o -c ../src/tools/extract-ancestors.cc [293/297] c++ -o src/extract-ancestors src/extract-ancestors.p/tools_extract-ancestors.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [294/297] c++ -Isrc/summarize-ancestors.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/summarize-ancestors.p/tools_summarize-ancestors.cc.o -MF src/summarize-ancestors.p/tools_summarize-ancestors.cc.o.d -o src/summarize-ancestors.p/tools_summarize-ancestors.cc.o -c ../src/tools/summarize-ancestors.cc [295/297] c++ -o src/summarize-ancestors src/summarize-ancestors.p/tools_summarize-ancestors.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX [296/297] c++ -Isrc/draw-tree.p -Isrc -I../src -I. -I.. -I../src/util/include -I/usr/include -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wnon-virtual-dtor -Wextra -Wpedantic -std=c++17 -O3 -DHAVE_CONFIG_H -Wno-sign-compare -Wno-maybe-uninitialized -Woverloaded-virtual -Wstrict-aliasing -Wno-unknown-pragmas -fdiagnostics-show-template-tree -DNDEBUG -DNDEBUG_DP -funroll-loops -fno-math-errno -fno-signed-zeros -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_FILESYSTEM_DYN_LINK=1 -DBOOST_RANDOM_DYN_LINK -DBOOST_CHRONO_DYN_LINK=1 -DBOOST_SYSTEM_DYN_LINK=1 -DBOOST_ALL_NO_LIB -MD -MQ src/draw-tree.p/tools_draw-tree.cc.o -MF src/draw-tree.p/tools_draw-tree.cc.o.d -o src/draw-tree.p/tools_draw-tree.cc.o -c ../src/tools/draw-tree.cc ../src/tools/draw-tree.cc: In function ‘MC_tree_with_lengths collapse_MC_tree(const MC_tree_with_lengths&)’: ../src/tools/draw-tree.cc:3351:10: warning: unused variable ‘right1’ [-Wunused-variable] 3351 | int right1 = MC1.mapping[b1]; | ^~~~~~ [297/297] c++ -o src/draw-tree src/draw-tree.p/tools_draw-tree.cc.o -Wl,--as-needed -Wl,--no-undefined -Wl,-O1 -g -O2 -fdebug-prefix-map=/build/reproducible-path/bali-phy-3.6.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wl,-z,relro -Wl,-z,now -Wl,--start-group src/util/libutil.a src/libcommon.a /usr/lib/x86_64-linux-gnu/libboost_system.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_program_options.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_random.so.1.74.0 /usr/lib/x86_64-linux-gnu/libboost_chrono.so.1.74.0 -lm /usr/lib/x86_64-linux-gnu/libcairo.so -Wl,--end-group -Wl,-rpath,XXXXXXXXXXXXXXXXXXXXXXXX dh_auto_test -O--buildsystem=meson cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 MESON_TESTTHREADS=15 meson test ninja: Entering directory `/build/reproducible-path/bali-phy-3.6.0+dfsg/obj-x86_64-linux-gnu' [1/4] Generating git-version.h with a custom command 1/36 bali-phy version OK 0.03s 2/36 bali-phy help OK 0.05s 3/36 bali-phy 5d test OK 3.35s 4/36 bali-phy 5d +A 50 OK 10.30s 5/36 bali-phy 48 +A 3 OK 18.45s 6/36 bali-phy 5d -A 200 OK 6.59s 7/36 model_P --help OK 0.01s 8/36 statreport --help OK 0.04s 9/36 stats-select --help OK 0.04s 10/36 alignment-gild --help OK 0.16s 11/36 alignment-consensus --help OK 0.04s 12/36 alignment-max --help OK 0.05s 13/36 alignment-chop-internal --help OK 0.15s 14/36 alignment-indices --help OK 0.03s 15/36 alignment-info --help OK 0.06s 16/36 alignment-cat --help OK 0.02s 17/36 alignment-translate --help OK 0.07s 18/36 alignment-find --help OK 0.09s 19/36 trees-consensus --help OK 0.09s 20/36 tree-mean-lengths --help OK 0.08s 21/36 mctree-mean-lengths --help OK 0.15s 22/36 trees-to-SRQ --help OK 0.08s 23/36 pickout --help OK 0.07s 24/36 cut-range --help OK 0.06s 25/36 trees-distances --help OK 0.03s 26/36 alignment-thin --help OK 0.09s 27/36 alignments-diff --help OK 0.06s 28/36 tree-tool --help OK 0.04s 29/36 alignment-distances --help OK 0.02s 30/36 alignment-draw --help OK 0.09s 31/36 trees-bootstrap --help OK 0.07s 32/36 draw-tree --help OK 0.11s 33/36 extract-ancestors --help OK 0.03s 34/36 summarize-ancestors --help OK 0.07s 35/36 subsample --help OK 0.07s 36/36 bali-phy testsuite OK 280.69s Ok: 36 Expected Fail: 0 Fail: 0 Unexpected Pass: 0 Skipped: 0 Timeout: 0 Full log written to /build/reproducible-path/bali-phy-3.6.0+dfsg/obj-x86_64-linux-gnu/meson-logs/testlog.txt create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=meson dh_prep -O--buildsystem=meson dh_auto_install -O--buildsystem=meson cd obj-x86_64-linux-gnu && DESTDIR=/build/reproducible-path/bali-phy-3.6.0\+dfsg/debian/bali-phy LC_ALL=C.UTF-8 ninja install [1/5] Generating git-version.h with a custom command [1/2] Installing files. Installing subdir /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Tree.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/SModel.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/SMC.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Range.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Prelude.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/PopGen.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Parse.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Parameters.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/MCMC.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/IModel.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Tree/Newick.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Tree Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/System/Environment.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/System Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/SModel/ReversibleMarkov.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/SModel Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/SModel/Nucleotides.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/SModel Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/SModel/Likelihood.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/SModel Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/SModel/Frequency.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/SModel Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/SModel/Doublets.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/SModel Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/SModel/Codons.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/SModel Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Random.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Uniform.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Tree.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/RandomAlignment.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Poisson.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Normal.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Mixture.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/List.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Laplace.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Geometric.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Gamma.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/FakeDist.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Exponential.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/ExpTransform.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Discrete.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/DirichletProcess.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Dirichlet.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Cauchy.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Categorical.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Binomial.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Beta.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Probability/Distribution/Bernoulli.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Probability/Distribution Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Foreign/Vector.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Foreign Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Foreign/String.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Foreign Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Foreign/Pair.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Foreign Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Foreign/Introspection.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Foreign Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Tuple.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Text.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Set.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/ReadFile.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Ord.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Maybe.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Matrix.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Map.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/List.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/JSON.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Ix.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Function.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Eq.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Either.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Char.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Bool.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/BitVector.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Data/Array.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Data Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Control/Monad.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Control Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Control/DeepSeq.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Control Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Compiler/ST.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Compiler Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Compiler/Real.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Compiler Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Compiler/Num.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Compiler Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Compiler/IO.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Compiler Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Compiler/Enum.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Compiler Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Compiler/Base.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Compiler Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Bio/Sequence.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Bio Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Bio/Alphabet.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Bio Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Bio/Alignment.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Bio Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Bio/Alignment/Pairwise.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Bio/Alignment Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/Bio/Alignment/Matrix.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/Bio/Alignment Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/BAliPhy/ATModel.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/BAliPhy Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/haskell/BAliPhy/ATModel/DataPartition.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/haskell/BAliPhy/ATModel Installing subdir /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/x3x3.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/x3_sym.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/x3.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/x2x2.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/x2_sym.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/x2.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/wag_freq.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/wag.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/tn93_sym.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/tn93.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/scaled_mixture.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/sample.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/rs07_relaxed_rates.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/rs07.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/rs05.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/rna_16a.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/parameter_mixture.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/pam.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/mut_sel_aa.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/mut_sel.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/multi_rate.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/multiMixtureModel.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/mixture.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/mg94k.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/mg94_ext.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/mg94.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/markov_modulate_mixture.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/m8a_test.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/m8a.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/m8.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/m7.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/m3_test.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/m3.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/m2a_test.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/m2a.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/m1a.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/lg08_freq.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/lg08.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/k80.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/jtt.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/jc69.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/inv.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/hky85_sym.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/hky85.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/gy94_ext.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/gy94.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/gwF.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/gtr_sym.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/gtr.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/get_q.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/fe.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/fMutSel0.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/fMutSel.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/f81.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/f61.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/f3x4.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/f1x4.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/f.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/equ.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/empirical.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/density.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/dNdS.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/branch_site.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/Rates/log_normal.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models/Rates Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/Rates/gamma.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models/Rates Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/Rates/free.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models/Rates Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/Frequencies/uniform.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models/Frequencies Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/Covarion/wang07.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models/Covarion Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/Covarion/ts98.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models/Covarion Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/Covarion/huelsenbeck02.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models/Covarion Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/models/Covarion/galtier01.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/models/Covarion Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/zipWith.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/zip.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/unit_mixture.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/uniform_discretize.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/tan.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/take.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/sub.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/standard_code.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/sqrt.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/sin.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/rna.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/replicate.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/quantile.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/num_branches.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/mul.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/map.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/log.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/letters.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/letter_pairs.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/length.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/intToDouble.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/getNucleotides.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/getAminoAcids.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/exp.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/dna.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/div.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/cos.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/codons.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/add.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/aa.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/constructors/Nil.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions/constructors Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/functions/constructors/Cons.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/functions/constructors Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/uniform_int.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/uniform.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/symmetric_dirichlet_on.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/symmetric_dirichlet.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/shifted_gamma.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/shifted_exponential.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/poisson.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/normal.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/log_normal.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/log_laplace.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/log_gamma.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/laplace.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/iid.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/geometric.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/gamma.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/exponential.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/cauchy.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/binomial.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/beta.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/bindings/distributions/bernoulli.json to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/bindings/distributions Installing subdir /build/reproducible-path/bali-phy-3.6.0+dfsg/help to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/parameters.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/alphabets.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/parameters/priors.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/parameters Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/version.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/verbose.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/unalign.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/tree.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/test.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/subsample.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/smodel.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/set.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/seed.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/scale.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/print.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/pre-burnin.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/package-path.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/name.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/model.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/link.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/iterations.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/imodel.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/enable.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/disable.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/config.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/branch-lengths.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/alphabet.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/align.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/commands/Rao-Blackwellize.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/commands Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/alphabets/genetic-code.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/alphabets Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/alphabets/Triplets.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/alphabets Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/alphabets/Doublets.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/alphabets Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/help/alphabets/Codons.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/help/alphabets Installing subdir /build/reproducible-path/bali-phy-3.6.0+dfsg/examples to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/table1.accessions to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/paper.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/other.accessions to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/additional.accessions to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/76.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/76.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/76-muscle.ph to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/76-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/76-clustalw.ph to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/76-clustalw.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/37.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/37.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/37-muscle.ph to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/37-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/37-clustalw.ph to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/37-clustalw.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/30.ph to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/30.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/30.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/30.aln to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/30-muscle.ph to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/30-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/30-clustalw.ph to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/microbotryum/30-clustalw.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/microbotryum Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/lrRNA/mollusc12.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/lrRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/lrRNA/mollusc.rna.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/lrRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/lrRNA/mollusc.gb to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/lrRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/lrRNA/mollusc.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/lrRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/lrRNA/keep.pl to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/lrRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/lrRNA/NOTES.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/lrRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/ferns/orig.nex to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/ferns Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/ferns/orig.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/ferns Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/ferns/config2.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/ferns Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/ferns/config.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/ferns Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/ferns/cleaned.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/ferns Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/ferns/README.txt to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/ferns Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/xylose_isomerase.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/subtilase.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/rr_receiver.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/parvalbumin-like.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/papain.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/lysozyme.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/legume_lectin.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/lectin.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/haloperoxidase.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/annexin.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/Starch_binding_domain.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Miklos-2008/Src_homology_2_domains.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Miklos-2008 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/ITS/ITS2-trimmed.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/ITS Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/ITS/ITS1-trimmed.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/ITS Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/ITS/5.8S.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/ITS Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/HIV/HIVSIV.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/HIV Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/HIV/chain-2005/pol.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/HIV/chain-2005 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/HIV/chain-2005/pol-common.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/HIV/chain-2005 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/HIV/chain-2005/pol-clustal.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/HIV/chain-2005 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/HIV/chain-2005/env.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/HIV/chain-2005 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/HIV/chain-2005/env-common.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/HIV/chain-2005 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/HIV/chain-2005/env-clustal.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/HIV/chain-2005 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/HIV/chain-2005/env-clustal-codons.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/HIV/chain-2005 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/some.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/many.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/many-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/globins.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/few.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/few-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/few-clustalw.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/few-clustalw.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/bglobin.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/10-globins.xml to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Globins/10-globins-Lunter.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Globins Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/v-src.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/v-src-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/v-src-mafft.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/v-src-fsa.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod-prank.2.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod-prank.2.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod-prank.1.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod-prank.1.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod-mafft.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod-fsa.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod-bali-phy-C20-gamma4.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod-bali-phy-C20-gamma4.MAP.tree to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/sod-bali-phy-C20-gamma4-c50.PP.tree to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins-prank.2.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins-prank.2.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins-prank.1.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins-prank.1.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins-mafft.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins-fsa.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins-bali-phy-C20-gamma4.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins-bali-phy-C20-gamma4.MAP.tree to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Feng-Doolittle-1987/globins-bali-phy-C20-gamma4-c50.PP.tree to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Feng-Doolittle-1987 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Enolase/enolase-38.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Enolase Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Enolase/enolase-38-trimmed.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Enolase Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/5d.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/5d-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/5d-clustalw.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/5d-clustalw.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/48b.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/48b-clustalw.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/48b-clustalw.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/25-mafft.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/12d.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/12d-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/12d-clustalw.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/EF-Tu/12d-clustalw.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/EF-Tu Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/trp-tyr/tyr.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/trp-tyr Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/trp-tyr/tyr-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/trp-tyr Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/trp-tyr/trp.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/trp-tyr Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/trp-tyr/trp-tyr-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/trp-tyr Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/trp-tyr/trp-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/trp-tyr Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/hisA-hisF/hisF.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/hisA-hisF Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/hisA-hisF/hisF-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/hisA-hisF Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/hisA-hisF/hisA.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/hisA-hisF Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/hisA-hisF/hisA-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/hisA-hisF Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/hisA-hisF/hisA-hisF-muscle.ph to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/hisA-hisF Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/Duplications/hisA-hisF/hisA-hisF-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/Duplications/hisA-hisF Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/5d.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/5d-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/5d-clustalw.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/5d-clustalw.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-t-coffee.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-t-coffee.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-probcons-RNA.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-probcons-RNA-trained.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-fsa.ph to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-fsa.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-dialign2-2.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-clustalw.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-clustalw.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-GTR-DP6-consensus.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-GTR-DP6-c10.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-GTR-DP6-WPD.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-GTR-DP6-MAP.tree to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/48-GTR-DP6-MAP.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-tcoffee.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-tcoffee.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-t-coffee.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-t-coffee.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-probcons-RNA.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-probcons-RNA-trained.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-poy.trees to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-poy.tree to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-poy.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-poy.command to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-muscle.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-fsa.ph to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-fsa.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-dialign2-2.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-clustalw.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-clustalw.dnd to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-GTR-LN8-c50.tree to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-GTR-LN8-c50.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/sequences/5S-rRNA/25-GTR-LN8-WPD.fasta to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/sequences/5S-rRNA Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/models/Airline.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/models Warning: trying to copy a symlink that points to a file. This will copy the file, but this will be changed in a future version of Meson to copy the symlink as is. Please update your build definitions so that it will not break when the change happens. Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/models/Coalmine.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/models Warning: trying to copy a symlink that points to a file. This will copy the file, but this will be changed in a future version of Meson to copy the symlink as is. Please update your build definitions so that it will not break when the change happens. Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/models/Demo1.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/models Warning: trying to copy a symlink that points to a file. This will copy the file, but this will be changed in a future version of Meson to copy the symlink as is. Please update your build definitions so that it will not break when the change happens. Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/models/Demo2.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/models Warning: trying to copy a symlink that points to a file. This will copy the file, but this will be changed in a future version of Meson to copy the symlink as is. Please update your build definitions so that it will not break when the change happens. Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/models/Demo3.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/models Warning: trying to copy a symlink that points to a file. This will copy the file, but this will be changed in a future version of Meson to copy the symlink as is. Please update your build definitions so that it will not break when the change happens. Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/models/Demo4.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/models Warning: trying to copy a symlink that points to a file. This will copy the file, but this will be changed in a future version of Meson to copy the symlink as is. Please update your build definitions so that it will not break when the change happens. Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/models/Demo5.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/models Warning: trying to copy a symlink that points to a file. This will copy the file, but this will be changed in a future version of Meson to copy the symlink as is. Please update your build definitions so that it will not break when the change happens. Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/examples/models/Demo6.hs to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/doc/bali-phy/examples/models Warning: trying to copy a symlink that points to a file. This will copy the file, but this will be changed in a future version of Meson to copy the symlink as is. Please update your build definitions so that it will not break when the change happens. Installing src/bali-phy/bali-phy to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/builtins/Array.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Data.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Prelude.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Alphabet.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Pair.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Modifiables.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Alignment.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/PopGen.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Distribution.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Range.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/SModel.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/MCMC.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Vector.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Environment.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/SMC.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Real.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Bits.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Foreign.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Text.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/builtins/Char.so to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy Installing src/model_P to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/statreport to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/stats-select to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-gild to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-consensus to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-max to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-chop-internal to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-indices to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-info to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-cat to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-translate to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-find to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/trees-consensus to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/tree-mean-lengths to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/mctree-mean-lengths to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/trees-to-SRQ to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/pickout to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/cut-range to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/trees-distances to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-thin to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignments-diff to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/tree-tool to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-distances to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/alignment-draw to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/trees-bootstrap to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/draw-tree to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/extract-ancestors to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/summarize-ancestors to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing src/bali-subsample to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing doc/bali-phy.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/model_P.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/statreport.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/stats-select.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-gild.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-consensus.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-max.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-chop-internal.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-indices.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-info.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-cat.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-translate.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-find.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/trees-consensus.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/tree-mean-lengths.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/mctree-mean-lengths.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/trees-to-SRQ.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/pickout.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/cut-range.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/trees-distances.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-thin.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignments-diff.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/tree-tool.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-distances.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/alignment-draw.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/trees-bootstrap.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/draw-tree.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/extract-ancestors.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/summarize-ancestors.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/bali-subsample.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/bp-analyze.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing doc/bali-phy-pkg.1 to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/share/man/man1 Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/scripts/bp-analyze to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/scripts/bali-phy-pkg to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/bin Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/scripts/compare-runs.R to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/libexec Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/scripts/compare-runs2.R to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/libexec Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/scripts/tree-plot.R to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/libexec Installing /build/reproducible-path/bali-phy-3.6.0+dfsg/scripts/tree-plot-3D.R to /build/reproducible-path/bali-phy-3.6.0+dfsg/debian/bali-phy/usr/lib/bali-phy/libexec dh_installdocs -O--buildsystem=meson dh_installchangelogs -O--buildsystem=meson dh_installman -O--buildsystem=meson dh_installsystemduser -O--buildsystem=meson dh_lintian -O--buildsystem=meson dh_perl -O--buildsystem=meson dh_link -O--buildsystem=meson dh_strip_nondeterminism -O--buildsystem=meson dh_compress -O--buildsystem=meson dh_fixperms -O--buildsystem=meson dh_missing -O--buildsystem=meson dh_dwz -a -O--buildsystem=meson dh_strip -a -O--buildsystem=meson dh_makeshlibs -a -O--buildsystem=meson dh_shlibdeps -a -O--buildsystem=meson dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Alphabet.so contains an unresolvable reference to symbol _ZN18AminoAcidsWithStopC1Ev: it's probably a plugin dpkg-shlibdeps: warning: 26 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Range.so contains an unresolvable reference to symbol _ZTI6Object: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/SModel.so contains an unresolvable reference to symbol _ZN12substitution16alignment_index2ERK20pairwise_alignment_tS2_: it's probably a plugin dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/MCMC.so contains an unresolvable reference to symbol _Z7uniformv: it's probably a plugin dpkg-shlibdeps: warning: 43 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Distribution.so contains an unresolvable reference to symbol _Z9geometricd: it's probably a plugin dpkg-shlibdeps: warning: 32 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Text.so contains an unresolvable reference to symbol _ZNK14expression_ref5printB5cxx11Ev: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Pair.so contains an unresolvable reference to symbol _ZNK14expression_ref5printB5cxx11Ev: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Char.so contains an unresolvable reference to symbol _ZN13OperationArgs8evaluateEi: it's probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Prelude.so contains an unresolvable reference to symbol _ZNK13OperationArgs12reg_for_slotEi: it's probably a plugin dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Foreign.so contains an unresolvable reference to symbol _Z12is_bool_trueRK14expression_ref: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/SMC.so contains an unresolvable reference to symbol _Z14select_columnsRK9alignmentRKSt6vectorIiSaIiEE: it's probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Array.so contains an unresolvable reference to symbol _ZNK14expression_ref5printB5cxx11Ev: it's probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Data.so contains an unresolvable reference to symbol _ZTV6Object: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Bits.so contains an unresolvable reference to symbol _ZN20pairwise_alignment_tC2Ev: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Modifiables.so contains an unresolvable reference to symbol _ZN8reg_heap33incremental_evaluate_unchangeableEi: it's probably a plugin dpkg-shlibdeps: warning: 26 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Real.so contains an unresolvable reference to symbol _ZNK14expression_ref5printB5cxx11Ev: it's probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Alignment.so contains an unresolvable reference to symbol _ZNK5indel7PairHMM5startEi: it's probably a plugin dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Environment.so contains an unresolvable reference to symbol _ZNK14expression_ref5printB5cxx11Ev: it's probably a plugin dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/PopGen.so contains an unresolvable reference to symbol _Z16portable_getlineRSiRNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE: it's probably a plugin dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/bali-phy/usr/lib/bali-phy/Vector.so contains an unresolvable reference to symbol _ZN11constructorC1ERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEi: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--buildsystem=meson dh_gencontrol -O--buildsystem=meson dh_md5sums -O--buildsystem=meson dh_builddeb -O--buildsystem=meson dpkg-deb: building package 'bali-phy' in '../bali-phy_3.6.0+dfsg-1_amd64.deb'. dpkg-deb: building package 'bali-phy-dbgsym' in '../bali-phy-dbgsym_3.6.0+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../bali-phy_3.6.0+dfsg-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration 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/3297272 and its subdirectories I: Current time: Sat Jan 6 18:35:23 -12 2024 I: pbuilder-time-stamp: 1704609323 Sun Jan 7 06:35:25 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Sun Jan 7 06:35:25 UTC 2024 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Sun Jan 7 06:46:59 UTC 2024 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Sun Jan 7 06:47:00 UTC 2024 I: bali-phy_3.6.0+dfsg-1_amd64.changes: Format: 1.8 Date: Sat, 06 Feb 2021 18:56:18 -0800 Source: bali-phy Binary: bali-phy bali-phy-dbgsym Architecture: amd64 Version: 3.6.0+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Benjamin Redelings Description: bali-phy - Bayesian Inference of Alignment and Phylogeny Changes: bali-phy (3.6.0+dfsg-1) unstable; urgency=medium . [ Benjamin Redelings ] * New upstream version 3.6.0+dfsg * Update standards version. * Require meson >= 0.53 * Remove unused linitian-override * Add -DNDEBUG to build rules. * Add lintian-override. . [ Andreas Tille ] * Standards-Version: 4.5.1 (routine-update) Checksums-Sha1: c7e2e26e11c5b3a96b5267adab8f2f7896649e6f 147825004 bali-phy-dbgsym_3.6.0+dfsg-1_amd64.deb e6de95060d2f6e3532de918ca93583805e9356f7 9030 bali-phy_3.6.0+dfsg-1_amd64.buildinfo 46b9a15a252de3eca52e1488bc224e67d8973cea 6173616 bali-phy_3.6.0+dfsg-1_amd64.deb Checksums-Sha256: 5e1d963d99b86795b951936a0e9ef327efa50990c5ddfc7b30e80938238a2378 147825004 bali-phy-dbgsym_3.6.0+dfsg-1_amd64.deb f6e7c359ccfa5b4d7935aebc451c96d144a7a01a37164e70bae14a79c7935293 9030 bali-phy_3.6.0+dfsg-1_amd64.buildinfo 9dc540da4ddd69948c7eaae55e8b6a27e9ee3caa4a77cdf28a11341f1b0368f4 6173616 bali-phy_3.6.0+dfsg-1_amd64.deb Files: 6f605e553b6517ef189ede94d4ef43b9 147825004 debug optional bali-phy-dbgsym_3.6.0+dfsg-1_amd64.deb da457b521be8426a1cd473fc7e690c34 9030 science optional bali-phy_3.6.0+dfsg-1_amd64.buildinfo ff5934d6ee99db72e3f4c3f65e5b22fa 6173616 science optional bali-phy_3.6.0+dfsg-1_amd64.deb Sun Jan 7 06:47:01 UTC 2024 I: diffoscope 240 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.Ti3Ps53t/bali-phy_3.6.0+dfsg-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.Ti3Ps53t/bali-phy_3.6.0+dfsg-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.Ti3Ps53t/bali-phy_3.6.0+dfsg-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.Ti3Ps53t/b1/bali-phy_3.6.0+dfsg-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.Ti3Ps53t/b2/bali-phy_3.6.0+dfsg-1_amd64.changes ## close_archive (total time: 0.001s) 0.001s 34 calls diffoscope.comparators.xz.XzContainer 0.000s 22 calls diffoscope.comparators.deb.DebTarContainer 0.000s 8 calls diffoscope.comparators.deb.DebContainer 0.000s 12 calls diffoscope.comparators.tar.TarContainer ## command (total time: 5145.380s) 2410.932s 9450 calls readelf 1730.361s 1054 calls diff 430.263s 1980 calls objdump 308.642s 18 calls objcopy 260.786s 34 calls xz 4.296s 198 calls strings 0.047s 2 calls cmp 0.047s 2 calls cmp (external) 0.007s 33 calls cmp (internal) ## compare_files (cumulative) (total time: 22276.903s) 4080.010s 1 call abc.DotChangesFile 4079.780s 2 calls abc.DebFile 4066.478s 4 calls abc.XzFile 4041.649s 2 calls abc.DebDataTarFile 4029.297s 18 calls abc.ElfFile 1932.400s 90 calls diffoscope.comparators.elf.ElfCodeSection 42.063s 333 calls diffoscope.comparators.elf.ElfSection 4.367s 18 calls diffoscope.comparators.elf.ElfStringSection 0.383s 2 calls abc.TarFile 0.277s 1 call abc.TextFile 0.168s 9 calls diffoscope.comparators.elf.MonkeyPatchedElfSection 0.030s 2 calls abc.Md5sumsFile ## container_extract (total time: 323.215s) 260.789s 34 calls diffoscope.comparators.xz.XzContainer 37.961s 1110 calls diffoscope.comparators.deb.DebTarContainer 24.443s 38 calls diffoscope.comparators.deb.DebContainer 0.022s 16 calls diffoscope.comparators.tar.TarContainer ## diff (total time: 7.934s) 7.934s 957 calls linediff ## has_same_content_as (total time: 0.134s) 0.048s 2 calls abc.DebDataTarFile 0.045s 18 calls abc.ElfFile 0.021s 333 calls diffoscope.comparators.elf.ElfSection 0.009s 2 calls abc.DebFile 0.007s 18 calls diffoscope.comparators.elf.ElfStringSection 0.001s 4 calls abc.Md5sumsFile 0.001s 90 calls diffoscope.comparators.elf.ElfCodeSection 0.001s 4 calls abc.TextFile 0.000s 4 calls abc.XzFile 0.000s 2 calls abc.TarFile 0.000s 1 call abc.DotChangesFile 0.000s 1 call diffoscope.comparators.utils.libarchive.LibarchiveSymlink 0.000s 9 calls diffoscope.comparators.elf.MonkeyPatchedElfSection ## main (total time: 4102.793s) 4102.761s 2 calls outputs 0.032s 1 call cleanup ## open_archive (total time: 0.001s) 0.000s 34 calls diffoscope.comparators.xz.XzContainer 0.000s 22 calls diffoscope.comparators.deb.DebTarContainer 0.000s 12 calls diffoscope.comparators.tar.TarContainer 0.000s 8 calls diffoscope.comparators.deb.DebContainer ## output (total time: 14.993s) 14.697s 1 call html 0.264s 1 call text 0.032s 1 call json ## recognizes (total time: 300.378s) 236.973s 928 calls diffoscope.comparators.utils.archive.ArchiveMember 49.980s 4020 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 7.294s 12 calls diffoscope.comparators.binary.FilesystemFile 4.572s 7326 calls diffoscope.comparators.elf.ElfSection 0.913s 1980 calls diffoscope.comparators.elf.ElfCodeSection 0.420s 216 calls diffoscope.comparators.debian.DebControlMember 0.172s 396 calls diffoscope.comparators.elf.ElfStringSection 0.053s 198 calls diffoscope.comparators.elf.MonkeyPatchedElfSection 0.000s 32 calls abc.Md5sumsFile 0.000s 10 calls abc.DotChangesFile 0.000s 4 calls diffoscope.comparators.utils.libarchive.LibarchiveSymlink ## specialize (total time: 7.931s) 7.931s 488 calls specialize Sun Jan 7 07:55:28 UTC 2024 E: bali-phy failed to build reproducibly in bullseye on amd64. Sun Jan 7 07:55:28 UTC 2024 E: diffoscope 240 found issues, please check https://tests.reproducible-builds.org/debian/dbd/bullseye/amd64/bali-phy_3.6.0+dfsg-1.diffoscope.html Sun Jan 7 07:55:38 UTC 2024 I: Submitting .buildinfo files to external archives: Sun Jan 7 07:55:38 UTC 2024 I: Submitting 12K b1/bali-phy_3.6.0+dfsg-1_amd64.buildinfo.asc Sun Jan 7 07:55:38 UTC 2024 I: Submitting 12K b2/bali-phy_3.6.0+dfsg-1_amd64.buildinfo.asc Sun Jan 7 07:55:39 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Jan 7 07:55:39 UTC 2024 I: Done submitting .buildinfo files. Sun Jan 7 07:55:39 UTC 2024 I: Removing signed bali-phy_3.6.0+dfsg-1_amd64.buildinfo.asc files: removed './b1/bali-phy_3.6.0+dfsg-1_amd64.buildinfo.asc' removed './b2/bali-phy_3.6.0+dfsg-1_amd64.buildinfo.asc'