I: pbuilder: network access will be disabled during build I: Current time: Sun Mar 8 00:08:08 +14 2020 I: pbuilder-time-stamp: 1583575688 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [libbpp-phyl_2.4.1-2.dsc] I: copying [./libbpp-phyl_2.4.1.orig.tar.gz] I: copying [./libbpp-phyl_2.4.1-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sat Mar 2 07:21:34 2019 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./libbpp-phyl_2.4.1-2.dsc dpkg-source: info: extracting libbpp-phyl in libbpp-phyl-2.4.1 dpkg-source: info: unpacking libbpp-phyl_2.4.1.orig.tar.gz dpkg-source: info: unpacking libbpp-phyl_2.4.1-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying unforce-cxxflags.patch dpkg-source: info: applying increase_test_tolerance.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/23451/tmp/hooks/D01_modify_environment starting disorder-fs debug: Running on profitbricks-build12-i386. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/23451/tmp/hooks/D01_modify_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 11~), cmake, d-shlibs (>= 0.82), libbpp-seq-dev (>= 2.4.1) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19231 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs (>= 0.82); however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on libbpp-seq-dev (>= 2.4.1); however: Package libbpp-seq-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} bsdmainutils{a} cmake{a} cmake-data{a} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libbpp-core-dev{a} libbpp-core4{a} libbpp-seq-dev{a} libbpp-seq12{a} libbsd0{a} libcroco3{a} libcurl4{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libgssapi-krb5-2{a} libicu63{a} libjsoncpp1{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.4-2{a} libldap-common{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps7{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libssl1.1{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} lsb-base{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix shared-mime-info wget xdg-user-dirs 0 packages upgraded, 63 newly installed, 0 to remove and 0 not upgraded. Need to get 32.2 MB of archives. After unpacking 128 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main i386 libbsd0 i386 0.9.1-2 [104 kB] Get: 2 http://deb.debian.org/debian buster/main i386 bsdmainutils i386 11.1.2+b1 [193 kB] Get: 3 http://deb.debian.org/debian buster/main i386 libuchardet0 i386 0.0.6-3 [65.2 kB] Get: 4 http://deb.debian.org/debian buster/main i386 groff-base i386 1.22.4-3 [935 kB] Get: 5 http://deb.debian.org/debian buster/main i386 libpipeline1 i386 1.5.1-2 [33.3 kB] Get: 6 http://deb.debian.org/debian buster/main i386 man-db i386 2.8.5-2 [1284 kB] Get: 7 http://deb.debian.org/debian buster/main i386 libncurses6 i386 6.1+20181013-2+deb10u2 [109 kB] Get: 8 http://deb.debian.org/debian buster/main i386 libprocps7 i386 2:3.3.15-2 [62.7 kB] Get: 9 http://deb.debian.org/debian buster/main i386 lsb-base all 10.2019051400 [28.4 kB] Get: 10 http://deb.debian.org/debian buster/main i386 procps i386 2:3.3.15-2 [259 kB] Get: 11 http://deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 12 http://deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4+deb10u1 [242 kB] Get: 13 http://deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4+deb10u1 [124 kB] Get: 14 http://deb.debian.org/debian buster/main i386 file i386 1:5.35-4+deb10u1 [66.3 kB] Get: 15 http://deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 16 http://deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 17 http://deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 18 http://deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 19 http://deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 20 http://deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 21 http://deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 22 http://deb.debian.org/debian buster/main i386 cmake-data all 3.13.4-1 [1476 kB] Get: 23 http://deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6 [8443 kB] Get: 24 http://deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 25 http://deb.debian.org/debian buster/main i386 libarchive13 i386 3.3.3-4+deb10u1 [351 kB] Get: 26 http://deb.debian.org/debian buster/main i386 libkeyutils1 i386 1.6-6 [15.4 kB] Get: 27 http://deb.debian.org/debian buster/main i386 libkrb5support0 i386 1.17-3 [68.6 kB] Get: 28 http://deb.debian.org/debian buster/main i386 libk5crypto3 i386 1.17-3 [126 kB] Get: 29 http://deb.debian.org/debian buster/main i386 libssl1.1 i386 1.1.1d-0+deb10u2 [1538 kB] Get: 30 http://deb.debian.org/debian buster/main i386 libkrb5-3 i386 1.17-3 [396 kB] Get: 31 http://deb.debian.org/debian buster/main i386 libgssapi-krb5-2 i386 1.17-3 [168 kB] Get: 32 http://deb.debian.org/debian buster/main i386 libsasl2-modules-db i386 2.1.27+dfsg-1+deb10u1 [70.1 kB] Get: 33 http://deb.debian.org/debian buster/main i386 libsasl2-2 i386 2.1.27+dfsg-1+deb10u1 [110 kB] Get: 34 http://deb.debian.org/debian buster/main i386 libldap-common all 2.4.47+dfsg-3+deb10u1 [89.6 kB] Get: 35 http://deb.debian.org/debian buster/main i386 libldap-2.4-2 i386 2.4.47+dfsg-3+deb10u1 [236 kB] Get: 36 http://deb.debian.org/debian buster/main i386 libnghttp2-14 i386 1.36.0-2+deb10u1 [90.3 kB] Get: 37 http://deb.debian.org/debian buster/main i386 libpsl5 i386 0.20.2-2 [54.4 kB] Get: 38 http://deb.debian.org/debian buster/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2 [64.2 kB] Get: 39 http://deb.debian.org/debian buster/main i386 libssh2-1 i386 1.8.0-2.1 [147 kB] Get: 40 http://deb.debian.org/debian buster/main i386 libcurl4 i386 7.64.0-4 [358 kB] Get: 41 http://deb.debian.org/debian buster/main i386 libexpat1 i386 2.2.6-2+deb10u1 [104 kB] Get: 42 http://deb.debian.org/debian buster/main i386 libjsoncpp1 i386 1.7.4-3 [85.0 kB] Get: 43 http://deb.debian.org/debian buster/main i386 librhash0 i386 1.3.8-1 [135 kB] Get: 44 http://deb.debian.org/debian buster/main i386 libuv1 i386 1.24.1-1 [116 kB] Get: 45 http://deb.debian.org/debian buster/main i386 cmake i386 3.13.4-1 [3747 kB] Get: 46 http://deb.debian.org/debian buster/main i386 d-shlibs all 0.84 [17.2 kB] Get: 47 http://deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 48 http://deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 49 http://deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 50 http://deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 51 http://deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 52 http://deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 53 http://deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 54 http://deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2+deb10u2 [1334 kB] Get: 55 http://deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 56 http://deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 57 http://deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 58 http://deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 59 http://deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 60 http://deb.debian.org/debian buster/main i386 libbpp-core4 i386 2.4.1-3 [641 kB] Get: 61 http://deb.debian.org/debian buster/main i386 libbpp-core-dev i386 2.4.1-3 [998 kB] Get: 62 http://deb.debian.org/debian buster/main i386 libbpp-seq12 i386 2.4.1-3 [539 kB] Get: 63 http://deb.debian.org/debian buster/main i386 libbpp-seq-dev i386 2.4.1-3 [794 kB] Fetched 32.2 MB in 5s (5909 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19231 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_i386.deb ... Unpacking libbsd0:i386 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_i386.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../02-libuchardet0_0.0.6-3_i386.deb ... Unpacking libuchardet0:i386 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_i386.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../04-libpipeline1_1.5.1-2_i386.deb ... Unpacking libpipeline1:i386 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_i386.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package libncurses6:i386. Preparing to unpack .../06-libncurses6_6.1+20181013-2+deb10u2_i386.deb ... Unpacking libncurses6:i386 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package libprocps7:i386. Preparing to unpack .../07-libprocps7_2%3a3.3.15-2_i386.deb ... Unpacking libprocps7:i386 (2:3.3.15-2) ... Selecting previously unselected package lsb-base. Preparing to unpack .../08-lsb-base_10.2019051400_all.deb ... Unpacking lsb-base (10.2019051400) ... Selecting previously unselected package procps. Preparing to unpack .../09-procps_2%3a3.3.15-2_i386.deb ... Unpacking procps (2:3.3.15-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../10-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../11-libmagic-mgc_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../12-libmagic1_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic1:i386 (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../13-file_1%3a5.35-4+deb10u1_i386.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../14-gettext-base_0.19.8.1-9_i386.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../15-libsigsegv2_2.12-2_i386.deb ... Unpacking libsigsegv2:i386 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../16-m4_1.4.18-2_i386.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../17-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../18-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../19-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../20-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package cmake-data. Preparing to unpack .../21-cmake-data_3.13.4-1_all.deb ... Unpacking cmake-data (3.13.4-1) ... Selecting previously unselected package libicu63:i386. Preparing to unpack .../22-libicu63_63.1-6_i386.deb ... Unpacking libicu63:i386 (63.1-6) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../23-libxml2_2.9.4+dfsg1-7+b3_i386.deb ... Unpacking libxml2:i386 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libarchive13:i386. Preparing to unpack .../24-libarchive13_3.3.3-4+deb10u1_i386.deb ... Unpacking libarchive13:i386 (3.3.3-4+deb10u1) ... Selecting previously unselected package libkeyutils1:i386. Preparing to unpack .../25-libkeyutils1_1.6-6_i386.deb ... Unpacking libkeyutils1:i386 (1.6-6) ... Selecting previously unselected package libkrb5support0:i386. Preparing to unpack .../26-libkrb5support0_1.17-3_i386.deb ... Unpacking libkrb5support0:i386 (1.17-3) ... Selecting previously unselected package libk5crypto3:i386. Preparing to unpack .../27-libk5crypto3_1.17-3_i386.deb ... Unpacking libk5crypto3:i386 (1.17-3) ... Selecting previously unselected package libssl1.1:i386. Preparing to unpack .../28-libssl1.1_1.1.1d-0+deb10u2_i386.deb ... Unpacking libssl1.1:i386 (1.1.1d-0+deb10u2) ... Selecting previously unselected package libkrb5-3:i386. Preparing to unpack .../29-libkrb5-3_1.17-3_i386.deb ... Unpacking libkrb5-3:i386 (1.17-3) ... Selecting previously unselected package libgssapi-krb5-2:i386. Preparing to unpack .../30-libgssapi-krb5-2_1.17-3_i386.deb ... Unpacking libgssapi-krb5-2:i386 (1.17-3) ... Selecting previously unselected package libsasl2-modules-db:i386. Preparing to unpack .../31-libsasl2-modules-db_2.1.27+dfsg-1+deb10u1_i386.deb ... Unpacking libsasl2-modules-db:i386 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libsasl2-2:i386. Preparing to unpack .../32-libsasl2-2_2.1.27+dfsg-1+deb10u1_i386.deb ... Unpacking libsasl2-2:i386 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../33-libldap-common_2.4.47+dfsg-3+deb10u1_all.deb ... Unpacking libldap-common (2.4.47+dfsg-3+deb10u1) ... Selecting previously unselected package libldap-2.4-2:i386. Preparing to unpack .../34-libldap-2.4-2_2.4.47+dfsg-3+deb10u1_i386.deb ... Unpacking libldap-2.4-2:i386 (2.4.47+dfsg-3+deb10u1) ... Selecting previously unselected package libnghttp2-14:i386. Preparing to unpack .../35-libnghttp2-14_1.36.0-2+deb10u1_i386.deb ... Unpacking libnghttp2-14:i386 (1.36.0-2+deb10u1) ... Selecting previously unselected package libpsl5:i386. Preparing to unpack .../36-libpsl5_0.20.2-2_i386.deb ... Unpacking libpsl5:i386 (0.20.2-2) ... Selecting previously unselected package librtmp1:i386. Preparing to unpack .../37-librtmp1_2.4+20151223.gitfa8646d.1-2_i386.deb ... Unpacking librtmp1:i386 (2.4+20151223.gitfa8646d.1-2) ... Selecting previously unselected package libssh2-1:i386. Preparing to unpack .../38-libssh2-1_1.8.0-2.1_i386.deb ... Unpacking libssh2-1:i386 (1.8.0-2.1) ... Selecting previously unselected package libcurl4:i386. Preparing to unpack .../39-libcurl4_7.64.0-4_i386.deb ... Unpacking libcurl4:i386 (7.64.0-4) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../40-libexpat1_2.2.6-2+deb10u1_i386.deb ... Unpacking libexpat1:i386 (2.2.6-2+deb10u1) ... Selecting previously unselected package libjsoncpp1:i386. Preparing to unpack .../41-libjsoncpp1_1.7.4-3_i386.deb ... Unpacking libjsoncpp1:i386 (1.7.4-3) ... Selecting previously unselected package librhash0:i386. Preparing to unpack .../42-librhash0_1.3.8-1_i386.deb ... Unpacking librhash0:i386 (1.3.8-1) ... Selecting previously unselected package libuv1:i386. Preparing to unpack .../43-libuv1_1.24.1-1_i386.deb ... Unpacking libuv1:i386 (1.24.1-1) ... Selecting previously unselected package cmake. Preparing to unpack .../44-cmake_3.13.4-1_i386.deb ... Unpacking cmake (3.13.4-1) ... 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I: Building the package I: Running cd /build/libbpp-phyl-2.4.1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package libbpp-phyl dpkg-buildpackage: info: source version 2.4.1-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean dh_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-i686-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu .. -- The CXX compiler identification is GNU 8.3.0 -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- bpp-core 4.1.0 found: -- static lib: /usr/lib/i386-linux-gnu/libbpp-core.a -- shared lib: /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 -- includes: /usr/include -- bpp-seq 12.0.0 found: -- static lib: /usr/lib/i386-linux-gnu/libbpp-seq.a -- shared lib: /usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 -- includes: /usr/include -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu dh_auto_build cd obj-i686-linux-gnu && make -j10 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' /usr/bin/cmake -S/build/libbpp-phyl-2.4.1 -B/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/CMakeFiles /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f src/CMakeFiles/bpp-phyl-shared.dir/build.make src/CMakeFiles/bpp-phyl-shared.dir/depend make -f src/CMakeFiles/bpp-phyl-static.dir/build.make src/CMakeFiles/bpp-phyl-static.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/src /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src/CMakeFiles/bpp-phyl-static.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/src /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src/CMakeFiles/bpp-phyl-shared.dir/DependInfo.cmake --color= Scanning dependencies of target bpp-phyl-shared make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f src/CMakeFiles/bpp-phyl-shared.dir/build.make src/CMakeFiles/bpp-phyl-shared.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 1%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/NeighborJoining.cpp.o [ 1%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/BipartitionTools.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/NeighborJoining.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Distance/NeighborJoining.cpp cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/BipartitionTools.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/BipartitionTools.cpp [ 1%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/BioNJ.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/BioNJ.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Distance/BioNJ.cpp [ 1%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/DistanceEstimation.cpp.o [ 2%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp.o [ 2%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o [ 2%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/BipartitionList.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/DistanceEstimation.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Distance/DistanceEstimation.cpp cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/BipartitionList.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/BipartitionList.cpp [ 2%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/HierarchicalClustering.cpp.o [ 2%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/PGMA.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/HierarchicalClustering.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Distance/HierarchicalClustering.cpp cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Distance/PGMA.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Distance/PGMA.cpp Scanning dependencies of target bpp-phyl-static make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f src/CMakeFiles/bpp-phyl-static.dir/build.make src/CMakeFiles/bpp-phyl-static.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 2%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp [ 2%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp [ 3%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp [ 3%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/CladogramPlot.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/CladogramPlot.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Graphics/CladogramPlot.cpp [ 3%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/PhylogramPlot.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/PhylogramPlot.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Graphics/PhylogramPlot.cpp [ 3%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Graphics/TreeDrawingDisplayControler.cpp [ 4%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/TreeDrawingListener.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Graphics/TreeDrawingListener.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Graphics/TreeDrawingListener.cpp [ 4%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOFrequenciesSetFormat.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong 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-Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp [ 5%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/BppOTransitionModelFormat.cpp [ 6%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/BppOTreeReaderFormat.cpp.o cd 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src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp [ 6%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp.o -c 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CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp [ 7%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoTreeFactory.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/IoTreeFactory.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/IoTreeFactory.cpp [ 7%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/Newick.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/Nhx.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/Nhx.cpp [ 8%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.cpp [ 9%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/AbstractDiscreteRatesAcrossSitesTreeLikelihood.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat 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/build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Likelihood/AbstractTreeLikelihood.cpp [ 10%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp [ 10%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp [ 10%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Likelihood/DRHomogeneousMixedTreeLikelihood.cpp [ 10%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionList.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionList.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/BipartitionList.cpp [ 10%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionTools.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionTools.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/BipartitionTools.cpp [ 10%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/DRHomogeneousTreeLikelihood.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 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-I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp [ 13%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Likelihood/PseudoNewtonOptimizer.cpp [ 13%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/BioNJ.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/BioNJ.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Distance/BioNJ.cpp [ 14%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RASTools.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RASTools.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Likelihood/RASTools.cpp [ 14%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Likelihood/RHomogeneousClockTreeLikelihood.cpp [ 14%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Likelihood/RHomogeneousMixedTreeLikelihood.cpp.o -c 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-Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionMethods.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Mapping/DecompositionMethods.cpp [ 16%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionReward.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/DecompositionReward.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Mapping/DecompositionReward.cpp [ 17%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/HierarchicalClustering.cpp.o cd 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src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Mapping/LaplaceSubstitutionCount.cpp [ 18%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/NaiveSubstitutionCount.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/NaiveSubstitutionCount.cpp.o -c 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-I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/NeighborJoining.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Distance/NeighborJoining.cpp cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Mapping/ProbabilisticSubstitutionMapping.cpp [ 19%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/SubstitutionMappingTools.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src 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src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/WeightedSubstitutionCount.cpp.o [ 20%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Graphics/AbstractDendrogramPlot.cpp cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Mapping/WeightedSubstitutionCount.cpp.o -c 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-I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Graphics/AbstractTreeDrawing.cpp [ 22%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.cpp [ 22%] Building CXX object 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[ 31%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/BppOTreeWriterFormat.cpp cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/IoDistanceMatrixFactory.cpp [ 32%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoFrequenciesSetFactory.cpp.o cd 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src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoTreeFactory.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/IoTreeFactory.cpp cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Io/IoSubstitutionModelFactory.cpp [ 33%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Io/Newick.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ 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src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.cpp [ 36%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M10.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M10.cpp.o -c 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CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M7.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Model/Codon/YNGP_M7.cpp [ 38%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M8.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/Model/Codon/YNGP_M8.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Model/Codon/YNGP_M8.cpp [ 38%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Likelihood/DRASDRTreeLikelihoodData.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o 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&& /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Model/FrequenciesSet/NucleotideFrequenciesSet.cpp [ 71%] Building CXX object src/CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/NNITopologySearch.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_shared_EXPORTS -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/bpp-phyl-shared.dir/Bpp/Phyl/NNITopologySearch.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/NNITopologySearch.cpp [ 72%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Model/FrequenciesSet/WordFrequenciesSet.cpp.o cd 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-c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/PhyloStatistics.cpp [ 90%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/MutationProcess.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/MutationProcess.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Simulation/MutationProcess.cpp cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library libbpp-phyl.so.12.0.0 libbpp-phyl.so.12 libbpp-phyl.so [ 90%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Simulation/NonHomogeneousSequenceSimulator.cpp make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 90%] Built target bpp-phyl-shared [ 90%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/Simulation/SequenceSimulationTools.cpp [ 91%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/SitePatterns.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/SitePatterns.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/SitePatterns.cpp [ 91%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeExceptions.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeExceptions.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/TreeExceptions.cpp [ 91%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeTemplateTools.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeTemplateTools.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/TreeTemplateTools.cpp [ 92%] Building CXX object src/CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeTools.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/TreeTools.cpp.o -c /build/libbpp-phyl-2.4.1/src/Bpp/Phyl/TreeTools.cpp make -f test/CMakeFiles/test_mapping.dir/build.make test/CMakeFiles/test_mapping.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_mapping.dir/DependInfo.cmake --color= make -f test/CMakeFiles/test_likelihood.dir/build.make test/CMakeFiles/test_likelihood.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_likelihood.dir/DependInfo.cmake --color= Scanning dependencies of target test_mapping make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_mapping.dir/build.make test/CMakeFiles/test_mapping.dir/build make -f test/CMakeFiles/test_likelihood_nh.dir/build.make test/CMakeFiles/test_likelihood_nh.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_likelihood_nh.dir/DependInfo.cmake --color= [ 92%] Building CXX object test/CMakeFiles/test_mapping.dir/test_mapping.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_mapping.dir/test_mapping.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_mapping.cpp Scanning dependencies of target test_likelihood make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_likelihood.dir/build.make test/CMakeFiles/test_likelihood.dir/build Scanning dependencies of target test_likelihood_nh make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_likelihood_nh.dir/build.make test/CMakeFiles/test_likelihood_nh.dir/build make -f test/CMakeFiles/test_likelihood_clock.dir/build.make test/CMakeFiles/test_likelihood_clock.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_likelihood_clock.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 92%] Building CXX object test/CMakeFiles/test_likelihood.dir/test_likelihood.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_likelihood.dir/test_likelihood.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_likelihood.cpp [ 92%] Building CXX object test/CMakeFiles/test_likelihood_nh.dir/test_likelihood_nh.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_likelihood_nh.dir/test_likelihood_nh.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_likelihood_nh.cpp Scanning dependencies of target test_likelihood_clock make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_likelihood_clock.dir/build.make test/CMakeFiles/test_likelihood_clock.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 93%] Building CXX object test/CMakeFiles/test_likelihood_clock.dir/test_likelihood_clock.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_likelihood_clock.dir/test_likelihood_clock.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_likelihood_clock.cpp make -f test/CMakeFiles/test_simulations.dir/build.make test/CMakeFiles/test_simulations.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_simulations.dir/DependInfo.cmake --color= Scanning dependencies of target test_simulations make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_simulations.dir/build.make test/CMakeFiles/test_simulations.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 94%] Building CXX object test/CMakeFiles/test_simulations.dir/test_simulations.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_simulations.dir/test_simulations.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_simulations.cpp make -f test/CMakeFiles/test_detailed_simulations.dir/build.make test/CMakeFiles/test_detailed_simulations.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_detailed_simulations.dir/DependInfo.cmake --color= Scanning dependencies of target test_detailed_simulations make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_detailed_simulations.dir/build.make test/CMakeFiles/test_detailed_simulations.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 95%] Building CXX object test/CMakeFiles/test_detailed_simulations.dir/test_detailed_simulations.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_detailed_simulations.dir/test_detailed_simulations.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_detailed_simulations.cpp make -f test/CMakeFiles/test_mapping_codon.dir/build.make test/CMakeFiles/test_mapping_codon.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_mapping_codon.dir/DependInfo.cmake --color= [ 95%] Linking CXX executable test_likelihood_clock cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_likelihood_clock.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_likelihood_clock.dir/test_likelihood_clock.cpp.o -o test_likelihood_clock -Wl,-rpath,/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 Scanning dependencies of target test_mapping_codon make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_mapping_codon.dir/build.make test/CMakeFiles/test_mapping_codon.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 95%] Linking CXX executable test_likelihood cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_likelihood.dir/link.txt --verbose=1 [ 95%] Building CXX object test/CMakeFiles/test_mapping_codon.dir/test_mapping_codon.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_mapping_codon.dir/test_mapping_codon.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_mapping_codon.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_likelihood.dir/test_likelihood.cpp.o -o test_likelihood -Wl,-rpath,/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 95%] Built target test_likelihood_clock make -f test/CMakeFiles/test_models.dir/build.make test/CMakeFiles/test_models.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_models.dir/DependInfo.cmake --color= Scanning dependencies of target test_models make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_models.dir/build.make test/CMakeFiles/test_models.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 95%] Building CXX object test/CMakeFiles/test_models.dir/test_models.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_models.dir/test_models.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_models.cpp make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 95%] Built target test_likelihood make -f test/CMakeFiles/test_nhx.dir/build.make test/CMakeFiles/test_nhx.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_nhx.dir/DependInfo.cmake --color= Scanning dependencies of target test_nhx make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_nhx.dir/build.make test/CMakeFiles/test_nhx.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 95%] Building CXX object test/CMakeFiles/test_nhx.dir/test_nhx.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_nhx.dir/test_nhx.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_nhx.cpp make -f test/CMakeFiles/test_bowker.dir/build.make test/CMakeFiles/test_bowker.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_bowker.dir/DependInfo.cmake --color= Scanning dependencies of target test_bowker make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_bowker.dir/build.make test/CMakeFiles/test_bowker.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 95%] Building CXX object test/CMakeFiles/test_bowker.dir/test_bowker.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_bowker.dir/test_bowker.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_bowker.cpp [ 96%] Linking CXX executable test_nhx cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_nhx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_nhx.dir/test_nhx.cpp.o -o test_nhx -Wl,-rpath,/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 96%] Built target test_nhx make -f test/CMakeFiles/test_parsimony.dir/build.make test/CMakeFiles/test_parsimony.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_parsimony.dir/DependInfo.cmake --color= Scanning dependencies of target test_parsimony make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_parsimony.dir/build.make test/CMakeFiles/test_parsimony.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 96%] Building CXX object test/CMakeFiles/test_parsimony.dir/test_parsimony.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_parsimony.dir/test_parsimony.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_parsimony.cpp make -f test/CMakeFiles/test_tree.dir/build.make test/CMakeFiles/test_tree.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_tree.dir/DependInfo.cmake --color= Scanning dependencies of target test_tree make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_tree.dir/build.make test/CMakeFiles/test_tree.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 96%] Building CXX object test/CMakeFiles/test_tree.dir/test_tree.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_tree.dir/test_tree.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_tree.cpp [ 97%] Linking CXX executable test_likelihood_nh cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_likelihood_nh.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_likelihood_nh.dir/test_likelihood_nh.cpp.o -o test_likelihood_nh -Wl,-rpath,/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 97%] Built target test_likelihood_nh make -f test/CMakeFiles/test_tree_getpath.dir/build.make test/CMakeFiles/test_tree_getpath.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_tree_getpath.dir/DependInfo.cmake --color= Scanning dependencies of target test_tree_getpath make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_tree_getpath.dir/build.make test/CMakeFiles/test_tree_getpath.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 98%] Building CXX object test/CMakeFiles/test_tree_getpath.dir/test_tree_getpath.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_tree_getpath.dir/test_tree_getpath.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_tree_getpath.cpp [ 98%] Linking CXX executable test_models cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_models.dir/link.txt --verbose=1 [ 98%] Linking CXX executable test_mapping /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_models.dir/test_models.cpp.o -o test_models -Wl,-rpath,/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mapping.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_mapping.dir/test_mapping.cpp.o -o test_mapping -Wl,-rpath,/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 98%] Built target test_models make -f test/CMakeFiles/test_tree_rootat.dir/build.make test/CMakeFiles/test_tree_rootat.dir/depend make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_tree_rootat.dir/DependInfo.cmake --color= Scanning dependencies of target test_tree_rootat make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_tree_rootat.dir/build.make test/CMakeFiles/test_tree_rootat.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 98%] Building CXX object test/CMakeFiles/test_tree_rootat.dir/test_tree_rootat.cpp.o cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/c++ -I/build/libbpp-phyl-2.4.1/src -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -o CMakeFiles/test_tree_rootat.dir/test_tree_rootat.cpp.o -c /build/libbpp-phyl-2.4.1/test/test_tree_rootat.cpp make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 98%] Built target test_mapping [ 98%] Linking CXX executable test_tree_getpath cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tree_getpath.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_tree_getpath.dir/test_tree_getpath.cpp.o -o test_tree_getpath -Wl,-rpath,/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 98%] Built target test_tree_getpath [ 98%] Linking CXX executable test_detailed_simulations cd 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/usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 [ 98%] Built target test_detailed_simulations make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 98%] Built target test_simulations [ 99%] Linking CXX executable test_tree_rootat cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tree_rootat.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_tree_rootat.dir/test_tree_rootat.cpp.o -o test_tree_rootat -Wl,-rpath,/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 99%] Built target test_tree_rootat [ 99%] Linking CXX executable test_tree cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tree.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/libbpp-phyl-2.4.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_tree.dir/test_tree.cpp.o -o test_tree -Wl,-rpath,/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src ../src/libbpp-phyl.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/i386-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 99%] Built target test_tree [100%] Linking CXX executable test_mapping_codon cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mapping_codon.dir/link.txt --verbose=1 [100%] Linking CXX executable test_bowker cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test && /usr/bin/cmake 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'/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [100%] Built target test_bowker [100%] Built target test_mapping_codon [100%] Linking CXX static library libbpp-phyl.a cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/bpp-phyl-static.dir/cmake_clean_target.cmake cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-phyl-static.dir/link.txt --verbose=1 /usr/bin/ar qc libbpp-phyl.a CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionList.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/BipartitionTools.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/BioNJ.cpp.o CMakeFiles/bpp-phyl-static.dir/Bpp/Phyl/Distance/DistanceEstimation.cpp.o 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/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_likelihood_nh.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_detailed_simulations.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test 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'/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_bowker.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_nhx.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_mapping_codon.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_nhx.dir/build.make test/CMakeFiles/test_nhx.dir/build make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_models.dir/build.make test/CMakeFiles/test_models.dir/build make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_detailed_simulations.dir/build.make test/CMakeFiles/test_detailed_simulations.dir/build make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_bowker.dir/build.make test/CMakeFiles/test_bowker.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Nothing to be done for 'test/CMakeFiles/test_nhx.dir/build'. make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_likelihood.dir/build.make test/CMakeFiles/test_likelihood.dir/build make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_likelihood_clock.dir/build.make test/CMakeFiles/test_likelihood_clock.dir/build make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_mapping.dir/build.make test/CMakeFiles/test_mapping.dir/build make -f test/CMakeFiles/test_likelihood_nh.dir/build.make test/CMakeFiles/test_likelihood_nh.dir/build make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_simulations.dir/build.make test/CMakeFiles/test_simulations.dir/build [ 93%] Built target test_nhx make -f test/CMakeFiles/test_parsimony.dir/build.make test/CMakeFiles/test_parsimony.dir/depend make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Nothing to be done for 'test/CMakeFiles/test_models.dir/build'. make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make -f test/CMakeFiles/test_mapping_codon.dir/build.make test/CMakeFiles/test_mapping_codon.dir/build make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' cd /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libbpp-phyl-2.4.1 /build/libbpp-phyl-2.4.1/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/test/CMakeFiles/test_parsimony.dir/DependInfo.cmake --color= make[3]: 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directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Nothing to be done for 'test/CMakeFiles/test_mapping.dir/build'. make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Nothing to be done for 'test/CMakeFiles/test_likelihood.dir/build'. make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Nothing to be done for 'test/CMakeFiles/test_likelihood_clock.dir/build'. make[3]: Nothing to be done for 'test/CMakeFiles/test_simulations.dir/build'. make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Entering directory 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test_likelihood_nh [ 97%] Built target test_likelihood [ 97%] Built target test_likelihood_clock make[3]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[3]: Nothing to be done for 'test/CMakeFiles/test_mapping_codon.dir/build'. make[3]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' [ 98%] Built target test_simulations [ 99%] Built target test_tree_rootat [ 99%] Built target test_parsimony [100%] Built target test_mapping_codon make[2]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/libbpp-phyl-2.4.1/obj-i686-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: 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Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Model -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractFromSubstitutionModelTransitionModel.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Model/G2001.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractKroneckerWordSubstitutionModel.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractWordSubstitutionModel.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Model/AbstractSubstitutionModel.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Model/InMixedSubstitutionModel.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Model/MixedSubstitutionModelSet.h -- Installing: 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/build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/BppOMultiTreeReaderFormat.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/BppOMultiTreeWriterFormat.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/IoSubstitutionModelFactory.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/BppOFrequenciesSetFormat.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/IoPairedSiteLikelihoods.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/BppOSubstitutionModelFormat.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/BppORateDistributionFormat.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/IoFrequenciesSet.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/BppOTransitionModelFormat.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/PhylipDistanceMatrixFormat.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/BppOTreeReaderFormat.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/Nhx.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/IoDistanceMatrixFactory.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/IoTree.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Io/IoDistanceMatrix.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/TreeTools.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/NodeTemplate.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Distance -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Distance/AbstractAgglomerativeDistanceMethod.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Distance/PGMA.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Distance/NeighborJoining.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Distance/HierarchicalClustering.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Distance/DistanceMethod.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Distance/DistanceEstimation.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Distance/BioNJ.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Parsimony -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Parsimony/TreeParsimonyScore.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Parsimony/AbstractTreeParsimonyData.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Parsimony/AbstractTreeParsimonyScore.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Parsimony/DRTreeParsimonyData.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Parsimony/TreeParsimonyData.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/Parsimony/DRTreeParsimonyScore.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/BipartitionList.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/include/Bpp/Phyl/TreeTemplate.h -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/lib/i386-linux-gnu/cmake/bpp-phyl/bpp-phyl-targets.cmake -- Installing: /build/libbpp-phyl-2.4.1/debian/tmp/usr/lib/i386-linux-gnu/cmake/bpp-phyl/bpp-phyl-targets-none.cmake make[1]: Leaving directory '/build/libbpp-phyl-2.4.1/obj-i686-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/libbpp-phyl-2.4.1' dh_install d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --movedev debian/tmp/usr/include/* usr/include \ --movedev debian/tmp/usr/lib/*/cmake usr/lib/i386-linux-gnu \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility --> libbpp-core-dev package exists. --> libbpp-seq-dev package exists. set -e install -d -m 755 debian/libbpp-phyl-dev/usr/lib/i386-linux-gnu install -d -m 755 debian/libbpp-phyl12/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/libbpp-phyl.a debian/libbpp-phyl-dev/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/libbpp-phyl.so debian/libbpp-phyl-dev/usr/lib/i386-linux-gnu mv /build/libbpp-phyl-2.4.1/debian/tmp/usr/lib/i386-linux-gnu/libbpp-phyl.so.12 debian/libbpp-phyl12/usr/lib/i386-linux-gnu mv /build/libbpp-phyl-2.4.1/debian/tmp/usr/lib/i386-linux-gnu/libbpp-phyl.so.12.0.0 debian/libbpp-phyl12/usr/lib/i386-linux-gnu PKGDEV=libbpp-phyl-dev PKGSHL=libbpp-phyl12 install -d -m 755 debian/libbpp-phyl-dev/usr/include mv debian/tmp/usr/include/Bpp debian/libbpp-phyl-dev/usr/include install -d -m 755 debian/libbpp-phyl-dev/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/cmake debian/libbpp-phyl-dev/usr/lib/i386-linux-gnu make[1]: Leaving directory '/build/libbpp-phyl-2.4.1' dh_installdocs dh_installchangelogs dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libbpp-phyl12-dbgsym' in '../libbpp-phyl12-dbgsym_2.4.1-2_i386.deb'. dpkg-deb: building package 'libbpp-phyl12' in '../libbpp-phyl12_2.4.1-2_i386.deb'. dpkg-deb: building package 'libbpp-phyl-dev' in '../libbpp-phyl-dev_2.4.1-2_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../libbpp-phyl_2.4.1-2_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: user script /srv/workspace/pbuilder/23451/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/23451/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/23451 and its subdirectories I: Current time: Sun Mar 8 00:29:15 +14 2020 I: pbuilder-time-stamp: 1583576955