https://launchpad.net/ubuntu/+source/clustalw/2.1+lgpl-7/+build/20306402 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux riscv64-qemu-lcy01-076 5.4.0-36-generic #41-Ubuntu SMP Thu Oct 1 14:51:42 UTC 2020 riscv64 Buildd toolchain package versions: launchpad-buildd_193~468~ubuntu18.04.1 python3-lpbuildd_193~468~ubuntu18.04.1 sbuild_0.79.0-1ubuntu1 git_1:2.25.1-1ubuntu3 dpkg-dev_1.19.7ubuntu3 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 16 Nov 17:18:47 ntpdate[989674]: adjust time server 10.211.37.1 offset 0.000156 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=hirsute --arch=riscv64 PACKAGEBUILD-20306402 --image-type chroot /home/buildd/filecache-default/455112eaccac6437d04b3f98755ef0ead6caaf02 Creating target for build PACKAGEBUILD-20306402 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=hirsute --arch=riscv64 PACKAGEBUILD-20306402 Starting target for build PACKAGEBUILD-20306402 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=hirsute --arch=riscv64 PACKAGEBUILD-20306402 'deb http://ftpmaster.internal/ubuntu hirsute main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-security main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-updates main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-20306402 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=hirsute --arch=riscv64 PACKAGEBUILD-20306402 Updating target for build PACKAGEBUILD-20306402 Get:1 http://ftpmaster.internal/ubuntu hirsute InRelease [267 kB] Get:2 http://ftpmaster.internal/ubuntu hirsute-security InRelease [88.4 kB] Get:3 http://ftpmaster.internal/ubuntu hirsute-updates InRelease [88.4 kB] Get:4 http://ftpmaster.internal/ubuntu hirsute-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu hirsute/main riscv64 Packages [1273 kB] Get:6 http://ftpmaster.internal/ubuntu hirsute/main Translation-en [509 kB] Get:7 http://ftpmaster.internal/ubuntu hirsute/universe riscv64 Packages [12.1 MB] Get:8 http://ftpmaster.internal/ubuntu hirsute/universe Translation-en [5332 kB] Get:9 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 Packages [157 kB] Get:10 http://ftpmaster.internal/ubuntu hirsute-proposed/main Translation-en [75.2 kB] Get:11 http://ftpmaster.internal/ubuntu hirsute-proposed/universe riscv64 Packages [1638 kB] Get:12 http://ftpmaster.internal/ubuntu hirsute-proposed/universe Translation-en [596 kB] Fetched 22.2 MB in 34s (644 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: libperl5.32 perl-modules-5.32 The following packages will be upgraded: apt base-files base-passwd bash binutils binutils-common binutils-riscv64-linux-gnu coreutils cpp-10 dash dpkg dpkg-dev fakeroot g++-10 gcc-10 gcc-10-base grep libapparmor1 libapt-pkg6.0 libatomic1 libaudit-common libaudit1 libbinutils libc-bin libc-dev-bin libc6 libc6-dev libcap2 libcc1-0 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdebconfclient0 libdpkg-perl libfakeroot libgcc-10-dev libgcc-s1 libgcrypt20 libgomp1 libidn2-0 libip4tc2 liblocale-gettext-perl libmpc3 libncursesw6 libnpth0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage1 libstdc++-10-dev libstdc++6 libsystemd0 libtext-charwidth-perl libtext-iconv-perl libtinfo6 libtirpc-common libtirpc-dev libtirpc3 libudev1 linux-libc-dev ncurses-base ncurses-bin perl perl-base readline-common systemd systemd-sysv systemd-timesyncd sysvinit-utils 72 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 61.0 MB of archives. After this operation, 42.6 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libcrypt-dev riscv64 1:4.4.17-1ubuntu1 [199 kB] Get:2 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libcrypt1 riscv64 1:4.4.17-1ubuntu1 [89.8 kB] Get:3 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libc6-dev riscv64 2.32-0ubuntu5 [3192 kB] Get:4 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libc-dev-bin riscv64 2.32-0ubuntu5 [28.8 kB] Get:5 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 linux-libc-dev riscv64 5.8.0-26.27 [1130 kB] Get:6 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libtirpc-common all 1.2.6-3 [7444 B] Get:7 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libtirpc-dev riscv64 1.2.6-3 [270 kB] Get:8 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libtirpc3 riscv64 1.2.6-3 [68.4 kB] Get:9 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libcc1-0 riscv64 10.2.0-17ubuntu1 [38.2 kB] Get:10 http://ftpmaster.internal/ubuntu hirsute/main riscv64 gcc-10-base riscv64 10.2.0-17ubuntu1 [19.6 kB] Get:11 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libgcc-s1 riscv64 10.2.0-17ubuntu1 [40.5 kB] Get:12 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libgomp1 riscv64 10.2.0-17ubuntu1 [83.8 kB] Get:13 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libatomic1 riscv64 10.2.0-17ubuntu1 [7492 B] Get:14 http://ftpmaster.internal/ubuntu hirsute/main riscv64 g++-10 riscv64 10.2.0-17ubuntu1 [7493 kB] Get:15 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libstdc++-10-dev riscv64 10.2.0-17ubuntu1 [3605 kB] Get:16 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libgcc-10-dev riscv64 10.2.0-17ubuntu1 [473 kB] Get:17 http://ftpmaster.internal/ubuntu hirsute/main riscv64 gcc-10 riscv64 10.2.0-17ubuntu1 [13.1 MB] Get:18 http://ftpmaster.internal/ubuntu hirsute/main riscv64 cpp-10 riscv64 10.2.0-17ubuntu1 [6522 kB] Get:19 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libstdc++6 riscv64 10.2.0-17ubuntu1 [509 kB] Get:20 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libmpc3 riscv64 1.2.0-1 [41.6 kB] Get:21 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libctf-nobfd0 riscv64 2.35.1-2ubuntu1 [41.5 kB] Get:22 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libctf0 riscv64 2.35.1-2ubuntu1 [40.4 kB] Get:23 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libbinutils riscv64 2.35.1-2ubuntu1 [289 kB] Get:24 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 binutils-common riscv64 2.35.1-2ubuntu1 [205 kB] Get:25 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 binutils riscv64 2.35.1-2ubuntu1 [3292 B] Get:26 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 binutils-riscv64-linux-gnu riscv64 2.35.1-2ubuntu1 [676 kB] Get:27 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libc6 riscv64 2.32-0ubuntu5 [2258 kB] Get:28 http://ftpmaster.internal/ubuntu hirsute/main riscv64 base-files riscv64 11ubuntu16 [60.1 kB] Get:29 http://ftpmaster.internal/ubuntu hirsute/main riscv64 bash riscv64 5.1~rc2-1ubuntu1 [617 kB] Get:30 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 coreutils riscv64 8.32-4ubuntu1 [1252 kB] Get:31 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 dpkg riscv64 1.20.5ubuntu3 [1136 kB] Get:32 http://ftpmaster.internal/ubuntu hirsute/main riscv64 dash riscv64 0.5.11+git20200708+dd9ef66-2 [81.7 kB] Get:33 http://ftpmaster.internal/ubuntu hirsute/main riscv64 grep riscv64 3.6-1 [145 kB] Get:34 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libncursesw6 riscv64 6.2+20200918-1 [115 kB] Get:35 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libtinfo6 riscv64 6.2+20200918-1 [79.1 kB] Get:36 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 ncurses-bin riscv64 6.2+20200918-1 [167 kB] Get:37 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libtext-iconv-perl riscv64 1.7-7build1 [13.1 kB] Get:38 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libtext-charwidth-perl riscv64 0.04-10build1 [9480 B] Get:39 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 perl-modules-5.32 all 5.32.0-5 [2754 kB] Get:40 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libperl5.32 riscv64 5.32.0-5 [3545 kB] Get:41 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 perl riscv64 5.32.0-5 [225 kB] Get:42 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 perl-base riscv64 5.32.0-5 [1469 kB] Get:43 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 liblocale-gettext-perl riscv64 1.07-4build1 [16.3 kB] Get:44 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libdebconfclient0 riscv64 0.255ubuntu1 [5648 B] Get:45 http://ftpmaster.internal/ubuntu hirsute/main riscv64 base-passwd riscv64 3.5.48 [45.9 kB] Get:46 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libc-bin riscv64 2.32-0ubuntu5 [514 kB] Get:47 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 ncurses-base all 6.2+20200918-1 [18.7 kB] Get:48 http://ftpmaster.internal/ubuntu hirsute/main riscv64 sysvinit-utils riscv64 2.96-5ubuntu1 [19.5 kB] Get:49 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libgcrypt20 riscv64 1.8.7-2ubuntu1 [390 kB] Get:50 http://ftpmaster.internal/ubuntu hirsute/main riscv64 systemd-sysv riscv64 246.6-2ubuntu1 [10.3 kB] Get:51 http://ftpmaster.internal/ubuntu hirsute/main riscv64 systemd-timesyncd riscv64 246.6-2ubuntu1 [25.7 kB] Get:52 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libapparmor1 riscv64 3.0.0-0ubuntu4 [32.1 kB] Get:53 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libaudit-common all 1:2.8.5-3ubuntu2 [4092 B] Get:54 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libaudit1 riscv64 1:2.8.5-3ubuntu2 [37.6 kB] Get:55 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libcap2 riscv64 1:2.44-1 [15.5 kB] Get:56 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libcryptsetup12 riscv64 2:2.3.4-1ubuntu1 [167 kB] Get:57 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libidn2-0 riscv64 2.3.0-3 [50.3 kB] Get:58 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libip4tc2 riscv64 1.8.5-3ubuntu3 [17.2 kB] Get:59 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libseccomp2 riscv64 2.4.3-1ubuntu5 [37.9 kB] Get:60 http://ftpmaster.internal/ubuntu hirsute/main riscv64 systemd riscv64 246.6-2ubuntu1 [3724 kB] Get:61 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libsystemd0 riscv64 246.6-2ubuntu1 [246 kB] Get:62 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libudev1 riscv64 246.6-2ubuntu1 [60.5 kB] Get:63 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libapt-pkg6.0 riscv64 2.1.11 [805 kB] Get:64 http://ftpmaster.internal/ubuntu hirsute/main riscv64 apt riscv64 2.1.11 [1239 kB] Get:65 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libselinux1 riscv64 3.1-2build1 [64.9 kB] Get:66 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libsemanage-common all 3.1-1build1 [10.1 kB] Get:67 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libsemanage1 riscv64 3.1-1build1 [75.6 kB] Get:68 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 readline-common all 8.1~rc2-2 [54.1 kB] Get:69 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libreadline8 riscv64 8.1~rc2-2 [119 kB] Get:70 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 dpkg-dev all 1.20.5ubuntu3 [758 kB] Get:71 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libdpkg-perl all 1.20.5ubuntu3 [232 kB] Get:72 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libfakeroot riscv64 1.25.3-1 [24.3 kB] Get:73 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 fakeroot riscv64 1.25.3-1 [66.6 kB] Get:74 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libnpth0 riscv64 1.6-3 [7052 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 61.0 MB in 11s (5319 kB/s) (Reading database ... 10910 files and directories currently installed.) Preparing to unpack .../libcrypt-dev_1%3a4.4.17-1ubuntu1_riscv64.deb ... Unpacking libcrypt-dev:riscv64 (1:4.4.17-1ubuntu1) over (1:4.4.16-1ubuntu1) ... Preparing to unpack .../libcrypt1_1%3a4.4.17-1ubuntu1_riscv64.deb ... Unpacking libcrypt1:riscv64 (1:4.4.17-1ubuntu1) over (1:4.4.16-1ubuntu1) ... Setting up libcrypt1:riscv64 (1:4.4.17-1ubuntu1) ... (Reading database ... 10910 files and directories currently installed.) Preparing to unpack .../0-libc6-dev_2.32-0ubuntu5_riscv64.deb ... Unpacking libc6-dev:riscv64 (2.32-0ubuntu5) over (2.32-0ubuntu3) ... Preparing to unpack .../1-libc-dev-bin_2.32-0ubuntu5_riscv64.deb ... Unpacking libc-dev-bin (2.32-0ubuntu5) over (2.32-0ubuntu3) ... Preparing to unpack .../2-linux-libc-dev_5.8.0-26.27_riscv64.deb ... Unpacking linux-libc-dev:riscv64 (5.8.0-26.27) over (5.8.0-25.26) ... Preparing to unpack .../3-libtirpc-common_1.2.6-3_all.deb ... Unpacking libtirpc-common (1.2.6-3) over (1.2.6-1build1) ... Preparing to unpack .../4-libtirpc-dev_1.2.6-3_riscv64.deb ... Unpacking libtirpc-dev:riscv64 (1.2.6-3) over (1.2.6-1build1) ... Preparing to unpack .../5-libtirpc3_1.2.6-3_riscv64.deb ... Unpacking libtirpc3:riscv64 (1.2.6-3) over (1.2.6-1build1) ... Preparing to unpack .../6-libcc1-0_10.2.0-17ubuntu1_riscv64.deb ... Unpacking libcc1-0:riscv64 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Preparing to unpack .../7-gcc-10-base_10.2.0-17ubuntu1_riscv64.deb ... Unpacking gcc-10-base:riscv64 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Setting up gcc-10-base:riscv64 (10.2.0-17ubuntu1) ... (Reading database ... 10909 files and directories currently installed.) Preparing to unpack .../libgcc-s1_10.2.0-17ubuntu1_riscv64.deb ... Unpacking libgcc-s1:riscv64 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Setting up libgcc-s1:riscv64 (10.2.0-17ubuntu1) ... (Reading database ... 10909 files and directories currently installed.) Preparing to unpack .../0-libgomp1_10.2.0-17ubuntu1_riscv64.deb ... Unpacking libgomp1:riscv64 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Preparing to unpack .../1-libatomic1_10.2.0-17ubuntu1_riscv64.deb ... Unpacking libatomic1:riscv64 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Preparing to unpack .../2-g++-10_10.2.0-17ubuntu1_riscv64.deb ... Unpacking g++-10 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Preparing to unpack .../3-libstdc++-10-dev_10.2.0-17ubuntu1_riscv64.deb ... Unpacking libstdc++-10-dev:riscv64 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Preparing to unpack .../4-libgcc-10-dev_10.2.0-17ubuntu1_riscv64.deb ... Unpacking libgcc-10-dev:riscv64 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Preparing to unpack .../5-gcc-10_10.2.0-17ubuntu1_riscv64.deb ... Unpacking gcc-10 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Preparing to unpack .../6-cpp-10_10.2.0-17ubuntu1_riscv64.deb ... Unpacking cpp-10 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Preparing to unpack .../7-libstdc++6_10.2.0-17ubuntu1_riscv64.deb ... Unpacking libstdc++6:riscv64 (10.2.0-17ubuntu1) over (10.2.0-13ubuntu1) ... Setting up libstdc++6:riscv64 (10.2.0-17ubuntu1) ... (Reading database ... 10909 files and directories currently installed.) Preparing to unpack .../0-libmpc3_1.2.0-1_riscv64.deb ... Unpacking libmpc3:riscv64 (1.2.0-1) over (1.2.0~rc1-1) ... Preparing to unpack .../1-libctf-nobfd0_2.35.1-2ubuntu1_riscv64.deb ... Unpacking libctf-nobfd0:riscv64 (2.35.1-2ubuntu1) over (2.35.1-1ubuntu1) ... Preparing to unpack .../2-libctf0_2.35.1-2ubuntu1_riscv64.deb ... Unpacking libctf0:riscv64 (2.35.1-2ubuntu1) over (2.35.1-1ubuntu1) ... Preparing to unpack .../3-libbinutils_2.35.1-2ubuntu1_riscv64.deb ... Unpacking libbinutils:riscv64 (2.35.1-2ubuntu1) over (2.35.1-1ubuntu1) ... Preparing to unpack .../4-binutils-common_2.35.1-2ubuntu1_riscv64.deb ... Unpacking binutils-common:riscv64 (2.35.1-2ubuntu1) over (2.35.1-1ubuntu1) ... Preparing to unpack .../5-binutils_2.35.1-2ubuntu1_riscv64.deb ... Unpacking binutils (2.35.1-2ubuntu1) over (2.35.1-1ubuntu1) ... Preparing to unpack .../6-binutils-riscv64-linux-gnu_2.35.1-2ubuntu1_riscv64.deb ... Unpacking binutils-riscv64-linux-gnu (2.35.1-2ubuntu1) over (2.35.1-1ubuntu1) ... Preparing to unpack .../7-libc6_2.32-0ubuntu5_riscv64.deb ... Unpacking libc6:riscv64 (2.32-0ubuntu5) over (2.32-0ubuntu3) ... Setting up libc6:riscv64 (2.32-0ubuntu5) ... (Reading database ... 10909 files and directories currently installed.) Preparing to unpack .../base-files_11ubuntu16_riscv64.deb ... Unpacking base-files (11ubuntu16) over (11ubuntu14) ... Setting up base-files (11ubuntu16) ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... (Reading database ... 10909 files and directories currently installed.) Preparing to unpack .../bash_5.1~rc2-1ubuntu1_riscv64.deb ... Unpacking bash (5.1~rc2-1ubuntu1) over (5.0-6ubuntu2) ... Setting up bash (5.1~rc2-1ubuntu1) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 10909 files and directories currently installed.) Preparing to unpack .../coreutils_8.32-4ubuntu1_riscv64.deb ... Unpacking coreutils (8.32-4ubuntu1) over (8.32-3ubuntu1) ... Setting up coreutils (8.32-4ubuntu1) ... (Reading database ... 10909 files and directories currently installed.) Preparing to unpack .../dpkg_1.20.5ubuntu3_riscv64.deb ... Unpacking dpkg (1.20.5ubuntu3) over (1.20.5ubuntu2) ... Setting up dpkg (1.20.5ubuntu3) ... (Reading database ... 10909 files and directories currently installed.) Preparing to unpack .../dash_0.5.11+git20200708+dd9ef66-2_riscv64.deb ... Unpacking dash (0.5.11+git20200708+dd9ef66-2) over (0.5.10.2-7) ... Setting up dash (0.5.11+git20200708+dd9ef66-2) ... (Reading database ... 10909 files and directories currently installed.) Preparing to unpack .../grep_3.6-1_riscv64.deb ... Unpacking grep (3.6-1) over (3.4-1) ... Setting up grep (3.6-1) ... (Reading database ... 10910 files and directories currently installed.) Preparing to unpack .../libncursesw6_6.2+20200918-1_riscv64.deb ... Unpacking libncursesw6:riscv64 (6.2+20200918-1) over (6.2-1) ... Preparing to unpack .../libtinfo6_6.2+20200918-1_riscv64.deb ... Unpacking libtinfo6:riscv64 (6.2+20200918-1) over (6.2-1) ... Setting up libtinfo6:riscv64 (6.2+20200918-1) ... (Reading database ... 10910 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.2+20200918-1_riscv64.deb ... Unpacking ncurses-bin (6.2+20200918-1) over (6.2-1) ... Setting up ncurses-bin (6.2+20200918-1) ... (Reading database ... 10910 files and directories currently installed.) Preparing to unpack .../0-libtext-iconv-perl_1.7-7build1_riscv64.deb ... Unpacking libtext-iconv-perl (1.7-7build1) over (1.7-7) ... Preparing to unpack .../1-libtext-charwidth-perl_0.04-10build1_riscv64.deb ... Unpacking libtext-charwidth-perl (0.04-10build1) over (0.04-10) ... Preparing to unpack .../2-perl_5.32.0-5_riscv64.deb ... Unpacking perl (5.32.0-5) over (5.30.3-4) ... Selecting previously unselected package perl-modules-5.32. Preparing to unpack .../3-perl-modules-5.32_5.32.0-5_all.deb ... Unpacking perl-modules-5.32 (5.32.0-5) ... Selecting previously unselected package libperl5.32:riscv64. Preparing to unpack .../4-libperl5.32_5.32.0-5_riscv64.deb ... Unpacking libperl5.32:riscv64 (5.32.0-5) ... Preparing to unpack .../5-perl-base_5.32.0-5_riscv64.deb ... Unpacking perl-base (5.32.0-5) over (5.30.3-4) ... Setting up perl-base (5.32.0-5) ... (Reading database ... 12828 files and directories currently installed.) Preparing to unpack .../liblocale-gettext-perl_1.07-4build1_riscv64.deb ... Unpacking liblocale-gettext-perl (1.07-4build1) over (1.07-4) ... Preparing to unpack .../libdebconfclient0_0.255ubuntu1_riscv64.deb ... Unpacking libdebconfclient0:riscv64 (0.255ubuntu1) over (0.252ubuntu1) ... Setting up libdebconfclient0:riscv64 (0.255ubuntu1) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../base-passwd_3.5.48_riscv64.deb ... Unpacking base-passwd (3.5.48) over (3.5.47) ... Setting up base-passwd (3.5.48) ... Changing home-directory of irc from /var/run/ircd to /run/ircd 1 changes have been made, rewriting files Writing passwd-file to /etc/passwd Writing shadow-file to /etc/shadow Writing group-file to /etc/group (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../libc-bin_2.32-0ubuntu5_riscv64.deb ... Unpacking libc-bin (2.32-0ubuntu5) over (2.32-0ubuntu3) ... Setting up libc-bin (2.32-0ubuntu5) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.2+20200918-1_all.deb ... Unpacking ncurses-base (6.2+20200918-1) over (6.2-1) ... Setting up ncurses-base (6.2+20200918-1) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../sysvinit-utils_2.96-5ubuntu1_riscv64.deb ... Unpacking sysvinit-utils (2.96-5ubuntu1) over (2.96-3ubuntu1) ... Setting up sysvinit-utils (2.96-5ubuntu1) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.8.7-2ubuntu1_riscv64.deb ... Unpacking libgcrypt20:riscv64 (1.8.7-2ubuntu1) over (1.8.5-5ubuntu2) ... Setting up libgcrypt20:riscv64 (1.8.7-2ubuntu1) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../systemd-sysv_246.6-2ubuntu1_riscv64.deb ... Unpacking systemd-sysv (246.6-2ubuntu1) over (246.6-1ubuntu1) ... Preparing to unpack .../systemd-timesyncd_246.6-2ubuntu1_riscv64.deb ... Unpacking systemd-timesyncd (246.6-2ubuntu1) over (246.6-1ubuntu1) ... Preparing to unpack .../libapparmor1_3.0.0-0ubuntu4_riscv64.deb ... Unpacking libapparmor1:riscv64 (3.0.0-0ubuntu4) over (3.0.0-0ubuntu1) ... Preparing to unpack .../libaudit-common_1%3a2.8.5-3ubuntu2_all.deb ... Unpacking libaudit-common (1:2.8.5-3ubuntu2) over (1:2.8.5-3ubuntu1) ... Setting up libaudit-common (1:2.8.5-3ubuntu2) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.8.5-3ubuntu2_riscv64.deb ... Unpacking libaudit1:riscv64 (1:2.8.5-3ubuntu2) over (1:2.8.5-3ubuntu1) ... Setting up libaudit1:riscv64 (1:2.8.5-3ubuntu2) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../libcap2_1%3a2.44-1_riscv64.deb ... Unpacking libcap2:riscv64 (1:2.44-1) over (1:2.43-1) ... Preparing to unpack .../libcryptsetup12_2%3a2.3.4-1ubuntu1_riscv64.deb ... Unpacking libcryptsetup12:riscv64 (2:2.3.4-1ubuntu1) over (2:2.3.3-1ubuntu6) ... Preparing to unpack .../libidn2-0_2.3.0-3_riscv64.deb ... Unpacking libidn2-0:riscv64 (2.3.0-3) over (2.3.0-1) ... Setting up libidn2-0:riscv64 (2.3.0-3) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../libip4tc2_1.8.5-3ubuntu3_riscv64.deb ... Unpacking libip4tc2:riscv64 (1.8.5-3ubuntu3) over (1.8.5-3ubuntu1) ... Preparing to unpack .../libseccomp2_2.4.3-1ubuntu5_riscv64.deb ... Unpacking libseccomp2:riscv64 (2.4.3-1ubuntu5) over (2.4.3-1ubuntu4) ... Preparing to unpack .../systemd_246.6-2ubuntu1_riscv64.deb ... Unpacking systemd (246.6-2ubuntu1) over (246.6-1ubuntu1) ... Preparing to unpack .../libsystemd0_246.6-2ubuntu1_riscv64.deb ... Unpacking libsystemd0:riscv64 (246.6-2ubuntu1) over (246.6-1ubuntu1) ... Setting up libsystemd0:riscv64 (246.6-2ubuntu1) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../libudev1_246.6-2ubuntu1_riscv64.deb ... Unpacking libudev1:riscv64 (246.6-2ubuntu1) over (246.6-1ubuntu1) ... Setting up libudev1:riscv64 (246.6-2ubuntu1) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0_2.1.11_riscv64.deb ... Unpacking libapt-pkg6.0:riscv64 (2.1.11) over (2.1.10) ... Setting up libapt-pkg6.0:riscv64 (2.1.11) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../apt_2.1.11_riscv64.deb ... Unpacking apt (2.1.11) over (2.1.10) ... Setting up apt (2.1.11) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../libselinux1_3.1-2build1_riscv64.deb ... Unpacking libselinux1:riscv64 (3.1-2build1) over (3.1-2) ... Setting up libselinux1:riscv64 (3.1-2build1) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../libsemanage-common_3.1-1build1_all.deb ... Unpacking libsemanage-common (3.1-1build1) over (3.1-1) ... Setting up libsemanage-common (3.1-1build1) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../libsemanage1_3.1-1build1_riscv64.deb ... Unpacking libsemanage1:riscv64 (3.1-1build1) over (3.1-1) ... Setting up libsemanage1:riscv64 (3.1-1build1) ... (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../0-readline-common_8.1~rc2-2_all.deb ... Unpacking readline-common (8.1~rc2-2) over (8.0-4) ... Preparing to unpack .../1-libreadline8_8.1~rc2-2_riscv64.deb ... Unpacking libreadline8:riscv64 (8.1~rc2-2) over (8.0-4) ... Preparing to unpack .../2-dpkg-dev_1.20.5ubuntu3_all.deb ... Unpacking dpkg-dev (1.20.5ubuntu3) over (1.20.5ubuntu2) ... Preparing to unpack .../3-libdpkg-perl_1.20.5ubuntu3_all.deb ... Unpacking libdpkg-perl (1.20.5ubuntu3) over (1.20.5ubuntu2) ... Preparing to unpack .../4-libfakeroot_1.25.3-1_riscv64.deb ... Unpacking libfakeroot:riscv64 (1.25.3-1) over (1.25.2-1) ... Preparing to unpack .../5-fakeroot_1.25.3-1_riscv64.deb ... Unpacking fakeroot (1.25.3-1) over (1.25.2-1) ... Preparing to unpack .../6-libnpth0_1.6-3_riscv64.deb ... Unpacking libnpth0:riscv64 (1.6-3) over (1.6-2) ... Setting up libip4tc2:riscv64 (1.8.5-3ubuntu3) ... Setting up libtext-iconv-perl (1.7-7build1) ... Setting up libtext-charwidth-perl (0.04-10build1) ... Setting up libapparmor1:riscv64 (3.0.0-0ubuntu4) ... Setting up libtirpc-common (1.2.6-3) ... Setting up perl-modules-5.32 (5.32.0-5) ... Setting up binutils-common:riscv64 (2.35.1-2ubuntu1) ... Setting up linux-libc-dev:riscv64 (5.8.0-26.27) ... Setting up libctf-nobfd0:riscv64 (2.35.1-2ubuntu1) ... Setting up libnpth0:riscv64 (1.6-3) ... Setting up libgomp1:riscv64 (10.2.0-17ubuntu1) ... Setting up libseccomp2:riscv64 (2.4.3-1ubuntu5) ... Setting up libcap2:riscv64 (1:2.44-1) ... Setting up libfakeroot:riscv64 (1.25.3-1) ... Setting up fakeroot (1.25.3-1) ... Setting up libmpc3:riscv64 (1.2.0-1) ... Setting up libatomic1:riscv64 (10.2.0-17ubuntu1) ... Setting up libncursesw6:riscv64 (6.2+20200918-1) ... Setting up libperl5.32:riscv64 (5.32.0-5) ... Setting up libcrypt-dev:riscv64 (1:4.4.17-1ubuntu1) ... Setting up libcryptsetup12:riscv64 (2:2.3.4-1ubuntu1) ... Setting up libbinutils:riscv64 (2.35.1-2ubuntu1) ... Setting up libc-dev-bin (2.32-0ubuntu5) ... Setting up readline-common (8.1~rc2-2) ... Setting up libcc1-0:riscv64 (10.2.0-17ubuntu1) ... Setting up liblocale-gettext-perl (1.07-4build1) ... Setting up cpp-10 (10.2.0-17ubuntu1) ... Setting up libctf0:riscv64 (2.35.1-2ubuntu1) ... Setting up libtirpc3:riscv64 (1.2.6-3) ... Setting up libgcc-10-dev:riscv64 (10.2.0-17ubuntu1) ... Setting up libreadline8:riscv64 (8.1~rc2-2) ... Setting up binutils-riscv64-linux-gnu (2.35.1-2ubuntu1) ... Setting up binutils (2.35.1-2ubuntu1) ... Setting up perl (5.32.0-5) ... Setting up libtirpc-dev:riscv64 (1.2.6-3) ... Setting up gcc-10 (10.2.0-17ubuntu1) ... Setting up libdpkg-perl (1.20.5ubuntu3) ... Setting up libc6-dev:riscv64 (2.32-0ubuntu5) ... Setting up libstdc++-10-dev:riscv64 (10.2.0-17ubuntu1) ... Setting up g++-10 (10.2.0-17ubuntu1) ... Setting up dpkg-dev (1.20.5ubuntu3) ... Setting up systemd (246.6-2ubuntu1) ... Setting up systemd-timesyncd (246.6-2ubuntu1) ... Setting up systemd-sysv (246.6-2ubuntu1) ... Processing triggers for libc-bin (2.32-0ubuntu5) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-20306402 riscv64 hirsute-proposed -c chroot:build-PACKAGEBUILD-20306402 --arch=riscv64 --dist=hirsute-proposed --nolog clustalw_2.1+lgpl-7.dsc Initiating build PACKAGEBUILD-20306402 with 8 jobs across 8 processor cores. Kernel reported to sbuild: 5.4.0-36-generic #41-Ubuntu SMP Thu Oct 1 14:51:42 UTC 2020 riscv64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on riscv64-qemu-lcy01-076.buildd +==============================================================================+ | clustalw 2.1+lgpl-7 (riscv64) Mon, 16 Nov 2020 17:24:53 +0000 | +==============================================================================+ Package: clustalw Version: 2.1+lgpl-7 Source Version: 2.1+lgpl-7 Distribution: hirsute-proposed Machine Architecture: riscv64 Host Architecture: riscv64 Build Architecture: riscv64 Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-20306402/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/clustalw-Sc5Lir/resolver-0ZU2C4' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- clustalw_2.1+lgpl-7.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/clustalw-Sc5Lir/clustalw-2.1+lgpl' with '<>' I: NOTICE: Log filtering will replace 'build/clustalw-Sc5Lir' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [370 B] Get:5 copy:/<>/apt_archive ./ Packages [453 B] Fetched 1780 B in 1s (2646 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: krb5-locales libgpm2 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libcroco3 libdebhelper-perl libelf1 libfile-stripnondeterminism-perl libglib2.0-0 libicu67 libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libcroco3 libdebhelper-perl libelf1 libfile-stripnondeterminism-perl libglib2.0-0 libicu67 libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf sbuild-build-depends-main-dummy 0 upgraded, 32 newly installed, 0 to remove and 0 not upgraded. Need to get 16.7 MB of archives. After this operation, 63.4 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [880 B] Get:2 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libuchardet0 riscv64 0.0.7-1 [67.7 kB] Get:3 http://ftpmaster.internal/ubuntu hirsute/main riscv64 groff-base riscv64 1.22.4-5 [815 kB] Get:4 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libpipeline1 riscv64 1.5.3-1 [23.9 kB] Get:5 http://ftpmaster.internal/ubuntu hirsute/main riscv64 man-db riscv64 2.9.3-2 [1081 kB] Get:6 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libmagic-mgc riscv64 1:5.38-5 [218 kB] Get:7 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libmagic1 riscv64 1:5.38-5 [70.6 kB] Get:8 http://ftpmaster.internal/ubuntu hirsute/main riscv64 file riscv64 1:5.38-5 [22.5 kB] Get:9 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libelf1 riscv64 0.182-1 [42.0 kB] Get:10 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libglib2.0-0 riscv64 2.66.2-1 [1143 kB] Get:11 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libicu67 riscv64 67.1-4 [8503 kB] Get:12 http://ftpmaster.internal/ubuntu hirsute-proposed/main riscv64 libxml2 riscv64 2.9.10+dfsg-6.2 [543 kB] Get:13 http://ftpmaster.internal/ubuntu hirsute/main riscv64 gettext-base riscv64 0.19.8.1-10build1 [47.4 kB] Get:14 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libsigsegv2 riscv64 2.12-2build1 [12.9 kB] Get:15 http://ftpmaster.internal/ubuntu hirsute/main riscv64 m4 riscv64 1.4.18-4 [188 kB] Get:16 http://ftpmaster.internal/ubuntu hirsute/main riscv64 autoconf all 2.69-11.1 [321 kB] Get:17 http://ftpmaster.internal/ubuntu hirsute/main riscv64 autotools-dev all 20180224.1 [39.6 kB] Get:18 http://ftpmaster.internal/ubuntu hirsute/main riscv64 automake all 1:1.16.2-4ubuntu1 [548 kB] Get:19 http://ftpmaster.internal/ubuntu hirsute/main riscv64 autopoint all 0.19.8.1-10build1 [412 kB] Get:20 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libtool all 2.4.6-14 [161 kB] Get:21 http://ftpmaster.internal/ubuntu hirsute/main riscv64 dh-autoreconf all 19 [16.1 kB] Get:22 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libdebhelper-perl all 13.2.1ubuntu1 [63.6 kB] Get:23 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libarchive-zip-perl all 1.68-1 [90.2 kB] Get:24 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libsub-override-perl all 0.09-2 [9532 B] Get:25 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libfile-stripnondeterminism-perl all 1.9.0-1 [17.2 kB] Get:26 http://ftpmaster.internal/ubuntu hirsute/main riscv64 dh-strip-nondeterminism all 1.9.0-1 [5192 B] Get:27 http://ftpmaster.internal/ubuntu hirsute/main riscv64 dwz riscv64 0.13-5 [147 kB] Get:28 http://ftpmaster.internal/ubuntu hirsute/main riscv64 libcroco3 riscv64 0.6.13-1 [71.1 kB] Get:29 http://ftpmaster.internal/ubuntu hirsute/main riscv64 gettext riscv64 0.19.8.1-10build1 [844 kB] Get:30 http://ftpmaster.internal/ubuntu hirsute/main riscv64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:31 http://ftpmaster.internal/ubuntu hirsute/main riscv64 po-debconf all 1.0.21 [233 kB] Get:32 http://ftpmaster.internal/ubuntu hirsute/main riscv64 debhelper all 13.2.1ubuntu1 [879 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 16.7 MB in 4s (4420 kB/s) Selecting previously unselected package libuchardet0:riscv64. (Reading database ... 12826 files and directories currently installed.) Preparing to unpack .../00-libuchardet0_0.0.7-1_riscv64.deb ... Unpacking libuchardet0:riscv64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../01-groff-base_1.22.4-5_riscv64.deb ... Unpacking groff-base (1.22.4-5) ... Selecting previously unselected package libpipeline1:riscv64. Preparing to unpack .../02-libpipeline1_1.5.3-1_riscv64.deb ... Unpacking libpipeline1:riscv64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../03-man-db_2.9.3-2_riscv64.deb ... Unpacking man-db (2.9.3-2) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../04-libmagic-mgc_1%3a5.38-5_riscv64.deb ... Unpacking libmagic-mgc (1:5.38-5) ... Selecting previously unselected package libmagic1:riscv64. Preparing to unpack .../05-libmagic1_1%3a5.38-5_riscv64.deb ... Unpacking libmagic1:riscv64 (1:5.38-5) ... Selecting previously unselected package file. Preparing to unpack .../06-file_1%3a5.38-5_riscv64.deb ... Unpacking file (1:5.38-5) ... Selecting previously unselected package libelf1:riscv64. Preparing to unpack .../07-libelf1_0.182-1_riscv64.deb ... Unpacking libelf1:riscv64 (0.182-1) ... Selecting previously unselected package libglib2.0-0:riscv64. Preparing to unpack .../08-libglib2.0-0_2.66.2-1_riscv64.deb ... Unpacking libglib2.0-0:riscv64 (2.66.2-1) ... Selecting previously unselected package libicu67:riscv64. Preparing to unpack .../09-libicu67_67.1-4_riscv64.deb ... Unpacking libicu67:riscv64 (67.1-4) ... Selecting previously unselected package libxml2:riscv64. Preparing to unpack .../10-libxml2_2.9.10+dfsg-6.2_riscv64.deb ... Unpacking libxml2:riscv64 (2.9.10+dfsg-6.2) ... Selecting previously unselected package gettext-base. Preparing to unpack .../11-gettext-base_0.19.8.1-10build1_riscv64.deb ... Unpacking gettext-base (0.19.8.1-10build1) ... Selecting previously unselected package libsigsegv2:riscv64. Preparing to unpack .../12-libsigsegv2_2.12-2build1_riscv64.deb ... Unpacking libsigsegv2:riscv64 (2.12-2build1) ... Selecting previously unselected package m4. Preparing to unpack .../13-m4_1.4.18-4_riscv64.deb ... Unpacking m4 (1.4.18-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../14-autoconf_2.69-11.1_all.deb ... Unpacking autoconf (2.69-11.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../15-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../16-automake_1%3a1.16.2-4ubuntu1_all.deb ... Unpacking automake (1:1.16.2-4ubuntu1) ... Selecting previously unselected package autopoint. Preparing to unpack .../17-autopoint_0.19.8.1-10build1_all.deb ... Unpacking autopoint (0.19.8.1-10build1) ... Selecting previously unselected package libtool. Preparing to unpack .../18-libtool_2.4.6-14_all.deb ... Unpacking libtool (2.4.6-14) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../19-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../20-libdebhelper-perl_13.2.1ubuntu1_all.deb ... Unpacking libdebhelper-perl (13.2.1ubuntu1) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../21-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../22-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../23-libfile-stripnondeterminism-perl_1.9.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.9.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../24-dh-strip-nondeterminism_1.9.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.9.0-1) ... Selecting previously unselected package dwz. Preparing to unpack .../25-dwz_0.13-5_riscv64.deb ... Unpacking dwz (0.13-5) ... Selecting previously unselected package libcroco3:riscv64. Preparing to unpack .../26-libcroco3_0.6.13-1_riscv64.deb ... Unpacking libcroco3:riscv64 (0.6.13-1) ... Selecting previously unselected package gettext. Preparing to unpack .../27-gettext_0.19.8.1-10build1_riscv64.deb ... Unpacking gettext (0.19.8.1-10build1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../29-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.2.1ubuntu1_all.deb ... Unpacking debhelper (13.2.1ubuntu1) ... Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../31-sbuild-build-depends-main-dummy_0.invalid.0_riscv64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libpipeline1:riscv64 (1.5.3-1) ... Setting up libicu67:riscv64 (67.1-4) ... Setting up libmagic-mgc (1:5.38-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:riscv64 (2.66.2-1) ... No schema files found: doing nothing. Setting up libdebhelper-perl (13.2.1ubuntu1) ... Setting up libmagic1:riscv64 (1:5.38-5) ... Setting up gettext-base (0.19.8.1-10build1) ... Setting up file (1:5.38-5) ... Setting up autotools-dev (20180224.1) ... Setting up libsigsegv2:riscv64 (2.12-2build1) ... Setting up autopoint (0.19.8.1-10build1) ... Setting up libuchardet0:riscv64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libelf1:riscv64 (0.182-1) ... Setting up libxml2:riscv64 (2.9.10+dfsg-6.2) ... Setting up libfile-stripnondeterminism-perl (1.9.0-1) ... Setting up libtool (2.4.6-14) ... Setting up m4 (1.4.18-4) ... Setting up libcroco3:riscv64 (0.6.13-1) ... Setting up autoconf (2.69-11.1) ... Setting up dh-strip-nondeterminism (1.9.0-1) ... Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-5) ... Setting up automake (1:1.16.2-4ubuntu1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up gettext (0.19.8.1-10build1) ... Setting up man-db (2.9.3-2) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up intltool-debian (0.35.0+20060710.5) ... Setting up po-debconf (1.0.21) ... Setting up dh-autoreconf (19) ... Setting up debhelper (13.2.1ubuntu1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.32-0ubuntu5) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (riscv64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-36-generic #41-Ubuntu SMP Thu Oct 1 14:51:42 UTC 2020 riscv64 (riscv64) Toolchain package versions: binutils_2.35.1-2ubuntu1 dpkg-dev_1.20.5ubuntu3 g++-10_10.2.0-17ubuntu1 gcc-10_10.2.0-17ubuntu1 libc6-dev_2.32-0ubuntu5 libstdc++-10-dev_10.2.0-17ubuntu1 libstdc++6_10.2.0-17ubuntu1 linux-libc-dev_5.8.0-26.27 Package versions: adduser_3.118ubuntu2 advancecomp_2.1-2.1build1 apt_2.1.11 autoconf_2.69-11.1 automake_1:1.16.2-4ubuntu1 autopoint_0.19.8.1-10build1 autotools-dev_20180224.1 base-files_11ubuntu16 base-passwd_3.5.48 bash_5.1~rc2-1ubuntu1 binutils_2.35.1-2ubuntu1 binutils-common_2.35.1-2ubuntu1 binutils-riscv64-linux-gnu_2.35.1-2ubuntu1 bsdextrautils_2.36-3ubuntu1 bsdutils_1:2.36-3ubuntu1 build-essential_12.8ubuntu3 bzip2_1.0.8-4ubuntu2 ca-certificates_20200601 coreutils_8.32-4ubuntu1 cpp_4:10.2.0-1ubuntu1 cpp-10_10.2.0-17ubuntu1 cpp-9_9.3.0-18ubuntu1 dash_0.5.11+git20200708+dd9ef66-2 debconf_1.5.74 debhelper_13.2.1ubuntu1 debianutils_4.11.2 dh-autoreconf_19 dh-strip-nondeterminism_1.9.0-1 diffutils_1:3.7-3ubuntu1 dpkg_1.20.5ubuntu3 dpkg-dev_1.20.5ubuntu3 dwz_0.13-5 e2fsprogs_1.45.6-1ubuntu1 fakeroot_1.25.3-1 file_1:5.38-5 findutils_4.7.0-1ubuntu2 g++_4:10.2.0-1ubuntu1 g++-10_10.2.0-17ubuntu1 gcc_4:10.2.0-1ubuntu1 gcc-10_10.2.0-17ubuntu1 gcc-10-base_10.2.0-17ubuntu1 gcc-8-base_8.4.0-4ubuntu1 gcc-9-base_9.3.0-18ubuntu1 gettext_0.19.8.1-10build1 gettext-base_0.19.8.1-10build1 gpg_2.2.20-1ubuntu1 gpg-agent_2.2.20-1ubuntu1 gpgconf_2.2.20-1ubuntu1 gpgv_2.2.20-1ubuntu1 grep_3.6-1 groff-base_1.22.4-5 gzip_1.10-2ubuntu1 hostname_3.23 init_1.58 init-system-helpers_1.58 intltool-debian_0.35.0+20060710.5 krb5-locales_1.17-10 libacl1_2.2.53-8 libapparmor1_3.0.0-0ubuntu4 libapt-pkg6.0_2.1.11 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.2build20.10.0 libassuan0_2.5.3-7.1 libatomic1_10.2.0-17ubuntu1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3ubuntu2 libaudit1_1:2.8.5-3ubuntu2 libbinutils_2.35.1-2ubuntu1 libblkid1_2.36-3ubuntu1 libbz2-1.0_1.0.8-4ubuntu2 libc-bin_2.32-0ubuntu5 libc-dev-bin_2.32-0ubuntu5 libc6_2.32-0ubuntu5 libc6-dev_2.32-0ubuntu5 libcap-ng0_0.7.9-2.2 libcap2_1:2.44-1 libcc1-0_10.2.0-17ubuntu1 libcom-err2_1.45.6-1ubuntu1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.17-1ubuntu1 libcrypt1_1:4.4.17-1ubuntu1 libcryptsetup12_2:2.3.4-1ubuntu1 libctf-nobfd0_2.35.1-2ubuntu1 libctf0_2.35.1-2ubuntu1 libdb5.3_5.3.28+dfsg1-0.6ubuntu3 libdebconfclient0_0.255ubuntu1 libdebhelper-perl_13.2.1ubuntu1 libdevmapper1.02.1_2:1.02.167-1ubuntu3 libdpkg-perl_1.20.5ubuntu3 libelf1_0.182-1 libext2fs2_1.45.6-1ubuntu1 libfakeroot_1.25.3-1 libffi7_3.3-4 libffi8ubuntu1_3.4~20200819gead65ca871-0ubuntu3 libfile-stripnondeterminism-perl_1.9.0-1 libgcc-10-dev_10.2.0-17ubuntu1 libgcc-s1_10.2.0-17ubuntu1 libgcrypt20_1.8.7-2ubuntu1 libgdbm-compat4_1.18.1-5.1 libgdbm6_1.18.1-5.1 libglib2.0-0_2.66.2-1 libgmp10_2:6.2.0+dfsg-6ubuntu1 libgnutls30_3.6.15-4ubuntu2 libgomp1_10.2.0-17ubuntu1 libgpg-error0_1.38-2 libgpm2_1.20.7-6 libgssapi-krb5-2_1.17-10 libhogweed5_3.5.1+really3.5.1-2 libhogweed6_3.6-2 libicu67_67.1-4 libidn2-0_2.3.0-3 libip4tc2_1.8.5-3ubuntu3 libisl22_0.22.1-1 libjson-c5_0.15-1 libk5crypto3_1.17-10 libkeyutils1_1.6.1-2ubuntu1 libkmod2_27+20200310-2ubuntu1 libkrb5-3_1.17-10 libkrb5support0_1.17-10 liblocale-gettext-perl_1.07-4build1 liblockfile-bin_1.16-1.1 liblockfile1_1.16-1.1 liblz4-1_1.9.2-2 liblzma5_5.2.4-1ubuntu1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmount1_2.36-3ubuntu1 libmpc3_1.2.0-1 libmpfr6_4.1.0-3 libncursesw6_6.2+20200918-1 libnettle7_3.5.1+really3.5.1-2 libnettle8_3.6-2 libnpth0_1.6-3 libnsl-dev_1.3.0-0ubuntu3 libnsl2_1.3.0-0ubuntu3 libnss-nis_3.1-0ubuntu4 libnss-nisplus_1.3-0ubuntu4 libp11-kit0_0.23.21-2build1 libpam-modules_1.3.1-5ubuntu6 libpam-modules-bin_1.3.1-5ubuntu6 libpam-runtime_1.3.1-5ubuntu6 libpam0g_1.3.1-5ubuntu6 libpcre2-8-0_10.34-7 libpcre3_2:8.39-13 libperl5.30_5.30.3-4 libperl5.32_5.32.0-5 libpipeline1_1.5.3-1 libpng16-16_1.6.37-3 libreadline8_8.1~rc2-2 libseccomp2_2.4.3-1ubuntu5 libselinux1_3.1-2build1 libsemanage-common_3.1-1build1 libsemanage1_3.1-1build1 libsepol1_3.1-1 libsigsegv2_2.12-2build1 libsmartcols1_2.36-3ubuntu1 libsqlite3-0_3.33.0-1 libss2_1.45.6-1ubuntu1 libssl1.1_1.1.1f-1ubuntu4 libstdc++-10-dev_10.2.0-17ubuntu1 libstdc++6_10.2.0-17ubuntu1 libsub-override-perl_0.09-2 libsystemd0_246.6-2ubuntu1 libtasn1-6_4.16.0-2 libtext-charwidth-perl_0.04-10build1 libtext-iconv-perl_1.7-7build1 libtinfo6_6.2+20200918-1 libtirpc-common_1.2.6-3 libtirpc-dev_1.2.6-3 libtirpc3_1.2.6-3 libtool_2.4.6-14 libuchardet0_0.0.7-1 libudev1_246.6-2ubuntu1 libunistring2_0.9.10-4 libuuid1_2.36-3ubuntu1 libxml2_2.9.10+dfsg-6.2 libzstd1_1.4.5+dfsg-4 linux-libc-dev_5.8.0-26.27 lockfile-progs_0.1.18 login_1:4.8.1-1ubuntu6 logsave_1.45.6-1ubuntu1 lsb-base_11.1.0ubuntu2 m4_1.4.18-4 make_4.3-4ubuntu1 man-db_2.9.3-2 mawk_1.3.4.20200120-2 mount_2.36-3ubuntu1 ncurses-base_6.2+20200918-1 ncurses-bin_6.2+20200918-1 openssl_1.1.1f-1ubuntu4 optipng_0.7.7-1 passwd_1:4.8.1-1ubuntu6 patch_2.7.6-6 perl_5.32.0-5 perl-base_5.32.0-5 perl-modules-5.30_5.30.3-4 perl-modules-5.32_5.32.0-5 pinentry-curses_1.1.0-4build1 pkgbinarymangler_146 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 readline-common_8.1~rc2-2 rpcsvc-proto_1.4.2-0ubuntu4 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1ubuntu1 sensible-utils_0.0.13 systemd_246.6-2ubuntu1 systemd-sysv_246.6-2ubuntu1 systemd-timesyncd_246.6-2ubuntu1 sysvinit-utils_2.96-5ubuntu1 tar_1.30+dfsg-7 ubuntu-keyring_2020.06.17.1 util-linux_2.36-3ubuntu1 xz-utils_5.2.4-1ubuntu1 zlib1g_1:1.2.11.dfsg-2ubuntu4 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: clustalw Binary: clustalw Architecture: any Version: 2.1+lgpl-7 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Charles Plessy , Andreas Tille Homepage: http://www.clustal.org/clustal2/ Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/clustalw Vcs-Git: https://salsa.debian.org/med-team/clustalw.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: clustalw deb science optional arch=any Checksums-Sha1: f29784f68585544baa77cbeca6392e533d4cf433 350761 clustalw_2.1+lgpl.orig.tar.gz ca05ae4a01ee2f310674eb3ad0f13bdbd5687f70 20292 clustalw_2.1+lgpl-7.debian.tar.xz Checksums-Sha256: e052059b87abfd8c9e695c280bfba86a65899138c82abccd5b00478a80f49486 350761 clustalw_2.1+lgpl.orig.tar.gz ba8006f86ea11234e17d0a1fa97d3e31ecfc075ba42c9840b45a15468cb3abfa 20292 clustalw_2.1+lgpl-7.debian.tar.xz Files: 144df8440a0ae083d5167616c8ceeb41 350761 clustalw_2.1+lgpl.orig.tar.gz ff53dd21d7d2e701119fc09dd6373a0f 20292 clustalw_2.1+lgpl-7.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl+yO6kRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtF/lg//UKZUVJVxdXv2F2zS19v/O0w3yAxkiHZ/ PZsLldjC0zPHGm8bGV+OBwf7WncslvQRWCJRUs5N8eKnYPmUP8lQARt/IVBVgjYs 750k+sMiw/MJMHBou7tm+dDhSlCB/3ifn0dR214f9arPh2KMwQXse/PSCcqOrXlb EoGvRte6lfbXJQ3i8lHzGMg3JrgwQyPffRItNbeoIRyw/vyJO+mRpUaOW6IJKPFg WHBqekaBgyoDzrHjMeTlIOBNipqsRa/MAgr0hFBD8pymwS5byVXIPfnZyStpnoMT DD9jqGFWYkAiGooMFwN0OF3XLsDXSNlRcDfwwCnAHIuzxYJm5pbLudpDTNr78a6M ikWmqaYhR6vBj4ta9XlnUOfkVp8C5SCV0wZ9JdAKvUhkHYmoe6fZa4vgH40NK57q y0qqwpn7qufghZrY/jr6KjC63G225koyJKH2qgbR8p1/aiQ6If7ZuRXR84bD9vOW YYt6hdni7l10ploT2u6NL44qsM2GJFkyaqYY6gvtvYy7eCmUECbotSoClrILAuxw u4ATxvnzoLNMd9YC/cuRQXcpQeMGDkFGU8sbFmJMYFbJeBIKNZE4cGmgcTg77BLR k7pjFYpytX5PYAKDfergKaauiO8mpa3368bACSQTf43x8jR9tW5WfDfMJL+UogVf kdKCxiIYjko= =4+ai -----END PGP SIGNATURE----- gpgv: Signature made Mon Nov 16 08:43:21 2020 UTC 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 ./clustalw_2.1+lgpl-7.dsc dpkg-source: info: extracting clustalw in /<> dpkg-source: info: unpacking clustalw_2.1+lgpl.orig.tar.gz dpkg-source: info: unpacking clustalw_2.1+lgpl-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=8 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-20306402 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-20306402 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-20306402 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package clustalw dpkg-buildpackage: info: source version 2.1+lgpl-7 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture riscv64 debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a configure.ac:79: installing './compile' src/Makefile.am:21: warning: source file './pairwise/FullPairwiseAlign.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled automake: warning: possible forward-incompatibility. automake: At least a source file is in a subdirectory, but the 'subdir-objects' automake: automake option hasn't been enabled. For now, the corresponding output automake: object file(s) will be placed in the top-level directory. However, automake: this behaviour will change in future Automake versions: they will automake: unconditionally cause object files to be placed in the same subdirectory automake: of the corresponding sources. automake: You are advised to start using 'subdir-objects' option throughout your automake: project, to avoid future incompatibilities. src/Makefile.am:21: warning: source file './pairwise/FastPairwiseAlign.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './fileInput/MSFFileParser.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './fileInput/FileReader.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './fileInput/PIRFileParser.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './fileInput/RSFFileParser.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './fileInput/GDEFileParser.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './fileInput/InFileStream.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './fileInput/ClustalFileParser.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './fileInput/PearsonFileParser.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './fileInput/FileParser.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './fileInput/EMBLFileParser.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/UPGMA/RootedClusterTree.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/UPGMA/UPGMAAlgorithm.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/UPGMA/Node.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/UPGMA/RootedGuideTree.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/UPGMA/RootedTreeOutput.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/Tree.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/ClusterTree.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/TreeInterface.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/UnRootedClusterTree.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/ClusterTreeOutput.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/RandomGenerator.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/NJTree.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './tree/AlignmentSteps.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './interface/InteractiveMenu.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './interface/CommandLineParser.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './substitutionMatrix/SubMatrix.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './multipleAlign/Iteration.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './multipleAlign/MSA.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './multipleAlign/MyersMillerProfileAlign.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './multipleAlign/ProfileStandard.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './multipleAlign/ProfileWithSub.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './multipleAlign/ProfileBase.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './multipleAlign/LowScoreSegProfile.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './general/OutputFile.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './general/UserParameters.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './general/Utility.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './general/InvalidCombination.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './general/DebugLog.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './general/ClustalWResources.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './general/VectorOutOfRange.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './general/SymMatrix.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './general/Stats.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './Help.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './alignment/Alignment.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './alignment/AlignmentOutput.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './alignment/ObjectiveScore.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './alignment/Sequence.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './Clustal.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled src/Makefile.am:21: warning: source file './main.cpp' is in a subdirectory, src/Makefile.am:21: but option 'subdir-objects' is disabled dh_auto_configure -a ./configure --build=riscv64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/riscv64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking build system type... riscv64-unknown-linux-gnu checking host system type... riscv64-unknown-linux-gnu checking target system type... riscv64-unknown-linux-gnu building for linux-gnu checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether make sets $(MAKE)... (cached) yes checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... none checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking for ranlib... ranlib checking how to run the C++ preprocessor... g++ -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for stdbool.h that conforms to C99... no checking for _Bool... no checking for an ANSI C-conforming const... yes checking for size_t... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating m4/Makefile config.status: creating src/Makefile config.status: creating src/clustalw_version.h config.status: creating src/config.h config.status: executing depfiles commands dh_auto_build -a make -j8 make[1]: Entering directory '/<>' Making all in m4 make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/<>/m4' Making all in src make[2]: Entering directory '/<>/src' make all-recursive make[3]: Entering directory '/<>/src' make[4]: Entering directory '/<>/src' g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp In file included from ./pairwise/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./pairwise/../alignment/Alignment.h:42, from ./pairwise/PairwiseAlignBase.h:10, from ./pairwise/FullPairwiseAlign.h:9, from ./pairwise/FullPairwiseAlign.cpp:9: ./pairwise/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./pairwise/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./pairwise/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./pairwise/../alignment/Alignment.h:42, from ./pairwise/PairwiseAlignBase.h:10, from ./pairwise/FastPairwiseAlign.h:9, from ./pairwise/FastPairwiseAlign.cpp:10: ./pairwise/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./pairwise/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp In file included from ./fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./fileInput/../alignment/Alignment.h:42, from ./fileInput/FileReader.h:12, from ./fileInput/FileReader.cpp:29: ./fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./fileInput/FileReader.cpp:29: ./fileInput/FileReader.h:42:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 42 | void checkInfile(int* nseqs, auto_ptr& fileParser); | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./fileInput/FileReader.h:11, from ./fileInput/FileReader.cpp:29: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./fileInput/FileReader.cpp: In member function ‘int clustalw::FileReader::readSeqs(clustalw::Alignment*, int, std::string*)’: ./fileInput/FileReader.cpp:155:5: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 155 | auto_ptr fileParser; // Means we dont need to delete it! | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./fileInput/FileReader.h:11, from ./fileInput/FileReader.cpp:29: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./fileInput/FileReader.cpp: At global scope: ./fileInput/FileReader.cpp:426:42: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 426 | void FileReader::checkInfile(int *nseqs, auto_ptr& fileParser) | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./fileInput/FileReader.h:11, from ./fileInput/FileReader.cpp:29: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp In file included from ./tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8, from ./tree/UPGMA/../../alignment/Alignment.h:42, from ./tree/UPGMA/../ClusterTree.h:20, from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./tree/UPGMA/../ClusterTree.h:23, from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: ./tree/UPGMA/../../general/OutputFile.h:26:14: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 26 | std::auto_ptr file; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/UPGMA/../ClusterTree.h:16, from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: ./tree/UPGMA/../ClusterTree.h:70:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 70 | auto_ptr quickDistMat; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/UPGMA/../ClusterTree.h:16, from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/UPGMA/RootedClusterTree.cpp:9: ./tree/UPGMA/RootedClusterTree.h:22:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 22 | auto_ptr treeFromDistMatrix(RootedGuideTree* phyloTree, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/UPGMA/../ClusterTree.h:16, from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/UPGMA/RootedClusterTree.cpp:11: ./tree/UPGMA/UPGMAAlgorithm.h:23:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 23 | auto_ptr generateTree(RootedGuideTree* phyTree, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/UPGMA/../ClusterTree.h:16, from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/UPGMA/RootedClusterTree.cpp:11: ./tree/UPGMA/UPGMAAlgorithm.h:51:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 51 | auto_ptr progSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/UPGMA/../ClusterTree.h:16, from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/UPGMA/RootedClusterTree.cpp:17:1: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 17 | auto_ptr RootedClusterTree::treeFromDistMatrix(RootedGuideTree* phyloTree,DistMatrix* distMat, Alignment *alignPtr, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/UPGMA/../ClusterTree.h:16, from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/UPGMA/RootedClusterTree.cpp: In member function ‘std::auto_ptr clustalw::RootedClusterTree::treeFromDistMatrix(clustalw::RootedGuideTree*, clustalw::DistMatrix*, clustalw::Alignment*, int, int, std::string&)’: ./tree/UPGMA/RootedClusterTree.cpp:21:5: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 21 | auto_ptr progSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/UPGMA/../ClusterTree.h:16, from ./tree/UPGMA/RootedClusterTree.h:8, from ./tree/UPGMA/RootedClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8, from ./tree/UPGMA/../../alignment/Alignment.h:42, from ./tree/UPGMA/RootedGuideTree.h:17, from ./tree/UPGMA/UPGMAAlgorithm.h:8, from ./tree/UPGMA/UPGMAAlgorithm.cpp:4: ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./tree/UPGMA/UPGMAAlgorithm.cpp:4: ./tree/UPGMA/UPGMAAlgorithm.h:23:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 23 | auto_ptr generateTree(RootedGuideTree* phyTree, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./tree/UPGMA/../../general/SquareMat.h:9, from ./tree/UPGMA/../../general/clustalw.h:43, from ./tree/UPGMA/UPGMAAlgorithm.h:6, from ./tree/UPGMA/UPGMAAlgorithm.cpp:4: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/UPGMA/UPGMAAlgorithm.cpp:4: ./tree/UPGMA/UPGMAAlgorithm.h:51:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 51 | auto_ptr progSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./tree/UPGMA/../../general/SquareMat.h:9, from ./tree/UPGMA/../../general/clustalw.h:43, from ./tree/UPGMA/UPGMAAlgorithm.h:6, from ./tree/UPGMA/UPGMAAlgorithm.cpp:4: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/UPGMA/UPGMAAlgorithm.cpp:27:1: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 27 | auto_ptr UPGMAAlgorithm::generateTree(RootedGuideTree* phyTree, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./tree/UPGMA/../../general/SquareMat.h:9, from ./tree/UPGMA/../../general/clustalw.h:43, from ./tree/UPGMA/UPGMAAlgorithm.h:6, from ./tree/UPGMA/UPGMAAlgorithm.cpp:4: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp In file included from ./tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8, from ./tree/UPGMA/../../alignment/Alignment.h:42, from ./tree/UPGMA/RootedGuideTree.h:17, from ./tree/UPGMA/RootedGuideTree.cpp:10: ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp In file included from ./tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:8, from ./tree/UPGMA/../../alignment/Alignment.h:42, from ./tree/UPGMA/RootedGuideTree.h:17, from ./tree/UPGMA/RootedTreeOutput.h:15, from ./tree/UPGMA/RootedTreeOutput.cpp:9: ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp In file included from ./tree/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./tree/../alignment/Alignment.h:42, from ./tree/Tree.h:13, from ./tree/Tree.cpp:10: ./tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp In file included from ./tree/Tree.cpp:10: ./tree/Tree.h:26:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 26 | auto_ptr createSets(int firstSeq, int lastSeq); | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./tree/../alignment/Alignment.h:38, from ./tree/Tree.h:13, from ./tree/Tree.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/Tree.cpp:278:1: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 278 | auto_ptr Tree::createSets(int firstSeq, int lastSeq) | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./tree/../alignment/Alignment.h:38, from ./tree/Tree.h:13, from ./tree/Tree.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/Tree.cpp: In member function ‘std::auto_ptr clustalw::Tree::createSets(int, int)’: ./tree/Tree.cpp:280:5: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 280 | auto_ptr progAlignSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./tree/../alignment/Alignment.h:38, from ./tree/Tree.h:13, from ./tree/Tree.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./tree/../alignment/Alignment.h:42, from ./tree/ClusterTree.h:20, from ./tree/ClusterTree.cpp:9: ./tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./tree/ClusterTree.h:23, from ./tree/ClusterTree.cpp:9: ./tree/../general/OutputFile.h:26:14: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 26 | std::auto_ptr file; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/ClusterTree.h:16, from ./tree/ClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/ClusterTree.cpp:9: ./tree/ClusterTree.h:70:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 70 | auto_ptr quickDistMat; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/ClusterTree.h:16, from ./tree/ClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./tree/../alignment/Alignment.h:42, from ./tree/TreeInterface.h:19, from ./tree/TreeInterface.cpp:15: ./tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./tree/TreeInterface.cpp:15: ./tree/TreeInterface.h:38:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 38 | auto_ptr getWeightsAndStepsFromDistMat(vector* seqWeights, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/TreeInterface.cpp:15: ./tree/TreeInterface.h:57:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 57 | auto_ptr getWeightsAndStepsFromTree(Alignment* alignPtr, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/TreeInterface.cpp:15: ./tree/TreeInterface.h:102:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 102 | auto_ptr getWeightsAndStepsFromDistMatNJ(vector* seqWeights, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/TreeInterface.cpp:15: ./tree/TreeInterface.h:108:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 108 | auto_ptr getWeightsAndStepsUseOldGuideTreeNJ(DistMatrix* distMat, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/TreeInterface.cpp:15: ./tree/TreeInterface.h:133:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 133 | auto_ptr getWeightsAndStepsFromTreeNJ(Alignment* alignPtr, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/TreeInterface.cpp:15: ./tree/TreeInterface.h:138:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 138 | auto_ptr getWeightsAndStepsFromDistMatUPGMA(vector* seqWeights, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/TreeInterface.cpp:15: ./tree/TreeInterface.h:142:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 142 | auto_ptr generateTreeFromDistMatUPGMA(RootedGuideTree* guideTree, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/ClusterTree.h:23, from ./tree/UnRootedClusterTree.h:8, from ./tree/TreeInterface.cpp:17: ./tree/../general/OutputFile.h:26:14: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 26 | std::auto_ptr file; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/UnRootedClusterTree.h:8, from ./tree/TreeInterface.cpp:17: ./tree/ClusterTree.h:70:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 70 | auto_ptr quickDistMat; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/TreeInterface.cpp:18: ./tree/Tree.h:26:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 26 | auto_ptr createSets(int firstSeq, int lastSeq); | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/TreeInterface.cpp:23: ./tree/UPGMA/RootedClusterTree.h:22:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 22 | auto_ptr treeFromDistMatrix(RootedGuideTree* phyloTree, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp:31:1: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 31 | auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp:103:1: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 103 | auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp:195:1: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 195 | auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp: In member function ‘std::auto_ptr clustalw::TreeInterface::getWeightsAndStepsFromDistMatNJ(std::vector*, clustalw::DistMatrix*, clustalw::Alignment*, int, int, std::string*, bool*)’: ./tree/TreeInterface.cpp:200:5: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 200 | auto_ptr progSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp: At global scope: ./tree/TreeInterface.cpp:208:1: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 208 | auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp: In member function ‘std::auto_ptr clustalw::TreeInterface::getWeightsAndStepsUseOldGuideTreeNJ(clustalw::DistMatrix*, clustalw::Alignment*, std::string*, std::vector*, int, int, bool*)’: ./tree/TreeInterface.cpp:214:5: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 214 | auto_ptr progSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp: At global scope: ./tree/TreeInterface.cpp:439:1: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 439 | auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp: In member function ‘std::auto_ptr clustalw::TreeInterface::getWeightsAndStepsFromTreeNJ(clustalw::Alignment*, clustalw::DistMatrix*, std::string*, std::vector*, int, int, bool*)’: ./tree/TreeInterface.cpp:445:5: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 445 | auto_ptr progSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp: At global scope: ./tree/TreeInterface.cpp:485:1: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 485 | auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp: In member function ‘std::auto_ptr clustalw::TreeInterface::getWeightsAndStepsFromDistMatUPGMA(std::vector*, clustalw::DistMatrix*, clustalw::Alignment*, int, int, std::string*, bool*)’: ./tree/TreeInterface.cpp:490:5: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 490 | auto_ptr progSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp: At global scope: ./tree/TreeInterface.cpp:503:1: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 503 | auto_ptr TreeInterface::generateTreeFromDistMatUPGMA(RootedGuideTree* guideTree, DistMatrix* distMat, Alignment *alignPtr, int seq1, int nSeqs, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./tree/TreeInterface.cpp: In member function ‘std::auto_ptr clustalw::TreeInterface::generateTreeFromDistMatUPGMA(clustalw::RootedGuideTree*, clustalw::DistMatrix*, clustalw::Alignment*, int, int, std::string*, bool*)’: ./tree/TreeInterface.cpp:506:5: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 506 | auto_ptr progSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/TreeInterface.h:17, from ./tree/TreeInterface.cpp:15: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./tree/../alignment/Alignment.h:42, from ./tree/ClusterTreeOutput.h:11, from ./tree/ClusterTreeOutput.cpp:9: ./tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./tree/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./tree/../alignment/Alignment.h:42, from ./tree/ClusterTree.h:20, from ./tree/UnRootedClusterTree.h:8, from ./tree/UnRootedClusterTree.cpp:9: ./tree/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./tree/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./tree/ClusterTree.h:23, from ./tree/UnRootedClusterTree.h:8, from ./tree/UnRootedClusterTree.cpp:9: ./tree/../general/OutputFile.h:26:14: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 26 | std::auto_ptr file; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/ClusterTree.h:16, from ./tree/UnRootedClusterTree.h:8, from ./tree/UnRootedClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./tree/UnRootedClusterTree.h:8, from ./tree/UnRootedClusterTree.cpp:9: ./tree/ClusterTree.h:70:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 70 | auto_ptr quickDistMat; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./tree/ClusterTree.h:16, from ./tree/UnRootedClusterTree.h:8, from ./tree/UnRootedClusterTree.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp In file included from ./interface/../fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./interface/../fileInput/../alignment/Alignment.h:42, from ./interface/../fileInput/FileReader.h:12, from ./interface/../Clustal.h:18, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./interface/../Clustal.h:18, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../fileInput/FileReader.h:42:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 42 | void checkInfile(int* nseqs, auto_ptr& fileParser); | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/InteractiveMenu.cpp:21: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../alignment/AlignmentOutput.h:68:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 68 | bool openExplicitFile(auto_ptr& outFile, string fileName); | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/InteractiveMenu.cpp:21: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../alignment/AlignmentOutput.h:69:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 69 | string openOutputFile(auto_ptr& outFile, string prompt, string path, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/InteractiveMenu.cpp:21: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../alignment/AlignmentOutput.h:75:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 75 | auto_ptr clustalOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/InteractiveMenu.cpp:21: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../alignment/AlignmentOutput.h:76:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 76 | auto_ptr gcgOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/InteractiveMenu.cpp:21: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../alignment/AlignmentOutput.h:77:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 77 | auto_ptr nbrfOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/InteractiveMenu.cpp:21: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../alignment/AlignmentOutput.h:78:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 78 | auto_ptr phylipOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/InteractiveMenu.cpp:21: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../alignment/AlignmentOutput.h:79:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 79 | auto_ptr gdeOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/InteractiveMenu.cpp:21: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../alignment/AlignmentOutput.h:80:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 80 | auto_ptr nexusOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/InteractiveMenu.cpp:21: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./interface/InteractiveMenu.cpp:23: ./interface/../alignment/AlignmentOutput.h:81:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 81 | auto_ptr fastaOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/InteractiveMenu.cpp:21: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp ./interface/InteractiveMenu.cpp: In member function ‘void clustalw::InteractiveMenu::doSystem()’: ./interface/InteractiveMenu.cpp:1190:15: warning: ignoring return value of ‘int system(const char*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 1190 | system(lin1.c_str()); | ~~~~~~^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp In file included from ./interface/../fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./interface/../fileInput/../alignment/Alignment.h:42, from ./interface/../fileInput/FileReader.h:12, from ./interface/../Clustal.h:18, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./interface/../Clustal.h:18, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../fileInput/FileReader.h:42:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 42 | void checkInfile(int* nseqs, auto_ptr& fileParser); | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/../general/SquareMat.h:9, from ./interface/../general/clustalw.h:43, from ./interface/../Clustal.h:15, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../alignment/AlignmentOutput.h:68:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 68 | bool openExplicitFile(auto_ptr& outFile, string fileName); | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/../general/SquareMat.h:9, from ./interface/../general/clustalw.h:43, from ./interface/../Clustal.h:15, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../alignment/AlignmentOutput.h:69:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 69 | string openOutputFile(auto_ptr& outFile, string prompt, string path, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/../general/SquareMat.h:9, from ./interface/../general/clustalw.h:43, from ./interface/../Clustal.h:15, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../alignment/AlignmentOutput.h:75:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 75 | auto_ptr clustalOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/../general/SquareMat.h:9, from ./interface/../general/clustalw.h:43, from ./interface/../Clustal.h:15, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../alignment/AlignmentOutput.h:76:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 76 | auto_ptr gcgOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/../general/SquareMat.h:9, from ./interface/../general/clustalw.h:43, from ./interface/../Clustal.h:15, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../alignment/AlignmentOutput.h:77:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 77 | auto_ptr nbrfOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/../general/SquareMat.h:9, from ./interface/../general/clustalw.h:43, from ./interface/../Clustal.h:15, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../alignment/AlignmentOutput.h:78:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 78 | auto_ptr phylipOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/../general/SquareMat.h:9, from ./interface/../general/clustalw.h:43, from ./interface/../Clustal.h:15, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../alignment/AlignmentOutput.h:79:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 79 | auto_ptr gdeOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/../general/SquareMat.h:9, from ./interface/../general/clustalw.h:43, from ./interface/../Clustal.h:15, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../alignment/AlignmentOutput.h:80:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 80 | auto_ptr nexusOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/../general/SquareMat.h:9, from ./interface/../general/clustalw.h:43, from ./interface/../Clustal.h:15, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: ./interface/../alignment/AlignmentOutput.h:81:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 81 | auto_ptr fastaOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./interface/../general/SquareMat.h:9, from ./interface/../general/clustalw.h:43, from ./interface/../Clustal.h:15, from ./interface/CommandLineParser.h:18, from ./interface/CommandLineParser.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./substitutionMatrix/SubMatrix.cpp:15: ./substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/ProfileBase.h:14, from ./multipleAlign/MSA.h:10, from ./multipleAlign/MSA.cpp:16: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/ProfileAlignAlgorithm.h:10, from ./multipleAlign/MyersMillerProfileAlign.h:10, from ./multipleAlign/MyersMillerProfileAlign.cpp:10: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/Iteration.h:8, from ./multipleAlign/Iteration.cpp:13: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp In file included from ./multipleAlign/Iteration.cpp:17: ./multipleAlign/../tree/TreeInterface.h:38:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 38 | auto_ptr getWeightsAndStepsFromDistMat(vector* seqWeights, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./multipleAlign/../alignment/Alignment.h:38, from ./multipleAlign/Iteration.h:8, from ./multipleAlign/Iteration.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./multipleAlign/Iteration.cpp:17: ./multipleAlign/../tree/TreeInterface.h:57:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 57 | auto_ptr getWeightsAndStepsFromTree(Alignment* alignPtr, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./multipleAlign/../alignment/Alignment.h:38, from ./multipleAlign/Iteration.h:8, from ./multipleAlign/Iteration.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./multipleAlign/Iteration.cpp:17: ./multipleAlign/../tree/TreeInterface.h:102:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 102 | auto_ptr getWeightsAndStepsFromDistMatNJ(vector* seqWeights, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./multipleAlign/../alignment/Alignment.h:38, from ./multipleAlign/Iteration.h:8, from ./multipleAlign/Iteration.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./multipleAlign/Iteration.cpp:17: ./multipleAlign/../tree/TreeInterface.h:108:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 108 | auto_ptr getWeightsAndStepsUseOldGuideTreeNJ(DistMatrix* distMat, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./multipleAlign/../alignment/Alignment.h:38, from ./multipleAlign/Iteration.h:8, from ./multipleAlign/Iteration.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./multipleAlign/Iteration.cpp:17: ./multipleAlign/../tree/TreeInterface.h:133:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 133 | auto_ptr getWeightsAndStepsFromTreeNJ(Alignment* alignPtr, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./multipleAlign/../alignment/Alignment.h:38, from ./multipleAlign/Iteration.h:8, from ./multipleAlign/Iteration.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./multipleAlign/Iteration.cpp:17: ./multipleAlign/../tree/TreeInterface.h:138:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 138 | auto_ptr getWeightsAndStepsFromDistMatUPGMA(vector* seqWeights, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./multipleAlign/../alignment/Alignment.h:38, from ./multipleAlign/Iteration.h:8, from ./multipleAlign/Iteration.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./multipleAlign/Iteration.cpp:17: ./multipleAlign/../tree/TreeInterface.h:142:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 142 | auto_ptr generateTreeFromDistMatUPGMA(RootedGuideTree* guideTree, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./multipleAlign/../alignment/Alignment.h:38, from ./multipleAlign/Iteration.h:8, from ./multipleAlign/Iteration.cpp:13: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/ProfileStandard.h:9, from ./multipleAlign/ProfileStandard.cpp:9: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./multipleAlign/Iteration.cpp: In member function ‘bool clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)’: ./multipleAlign/Iteration.cpp:231:24: warning: ignoring return value of ‘char* tmpnam(char*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 231 | tmpnam (buffer); | ~~~~~~~^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/ProfileWithSub.h:9, from ./multipleAlign/ProfileWithSub.cpp:9: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/ProfileBase.h:14, from ./multipleAlign/ProfileBase.cpp:9: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp In file included from ./general/OutputFile.cpp:9: ./general/OutputFile.h:26:14: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 26 | std::auto_ptr file; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./general/OutputFile.h:8, from ./general/OutputFile.cpp:9: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./multipleAlign/../alignment/Alignment.h:42, from ./multipleAlign/LowScoreSegProfile.h:13, from ./multipleAlign/LowScoreSegProfile.cpp:9: ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp ./general/Utility.cpp: In member function ‘double clustalw::Utility::getReal(const char*, double, double, double)’: ./general/Utility.cpp:183:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 183 | fgets(line, MAXLINE, stdin); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~ ./general/Utility.cpp: In member function ‘int clustalw::Utility::getInt(const char*, int, int, int)’: ./general/Utility.cpp:221:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 221 | fgets(line, MAXLINE, stdin); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp In file included from ./alignment/../substitutionMatrix/globalmatrix.h:8, from ./alignment/Alignment.h:42, from ./alignment/Alignment.cpp:25: ./alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp In file included from ./alignment/../substitutionMatrix/globalmatrix.h:8, from ./alignment/ObjectiveScore.h:15, from ./alignment/ObjectiveScore.cpp:10: ./alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./general/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./general/../alignment/Alignment.h:42, from ./general/Stats.cpp:15: ./general/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./general/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./alignment/../substitutionMatrix/globalmatrix.h:8, from ./alignment/Alignment.h:42, from ./alignment/AlignmentOutput.h:24, from ./alignment/AlignmentOutput.cpp:27: ./alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./alignment/AlignmentOutput.cpp:27: ./alignment/AlignmentOutput.h:68:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 68 | bool openExplicitFile(auto_ptr& outFile, string fileName); | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./alignment/AlignmentOutput.cpp:27: ./alignment/AlignmentOutput.h:69:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 69 | string openOutputFile(auto_ptr& outFile, string prompt, string path, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./alignment/AlignmentOutput.cpp:27: ./alignment/AlignmentOutput.h:75:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 75 | auto_ptr clustalOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./alignment/AlignmentOutput.cpp:27: ./alignment/AlignmentOutput.h:76:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 76 | auto_ptr gcgOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./alignment/AlignmentOutput.cpp:27: ./alignment/AlignmentOutput.h:77:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 77 | auto_ptr nbrfOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./alignment/AlignmentOutput.cpp:27: ./alignment/AlignmentOutput.h:78:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 78 | auto_ptr phylipOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./alignment/AlignmentOutput.cpp:27: ./alignment/AlignmentOutput.h:79:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 79 | auto_ptr gdeOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./alignment/AlignmentOutput.cpp:27: ./alignment/AlignmentOutput.h:80:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 80 | auto_ptr nexusOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./alignment/AlignmentOutput.cpp:27: ./alignment/AlignmentOutput.h:81:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 81 | auto_ptr fastaOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./alignment/AlignmentOutput.cpp:512:40: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 512 | bool AlignmentOutput::openExplicitFile(auto_ptr& outFile, string fileName) | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./alignment/AlignmentOutput.cpp:535:40: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 535 | string AlignmentOutput::openOutputFile(auto_ptr& outFile, string prompt, | ^~~~~~~~ In file included from /usr/include/c++/10/memory:83, from ./alignment/AlignmentOutput.h:20, from ./alignment/AlignmentOutput.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./fileInput/../alignment/../substitutionMatrix/globalmatrix.h:8, from ./fileInput/../alignment/Alignment.h:42, from ./fileInput/FileReader.h:12, from ./Clustal.h:18, from ./Clustal.cpp:27: ./fileInput/../alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./fileInput/../alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./Clustal.h:18, from ./Clustal.cpp:27: ./fileInput/FileReader.h:42:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 42 | void checkInfile(int* nseqs, auto_ptr& fileParser); | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.h:20, from ./Clustal.cpp:27: ./alignment/AlignmentOutput.h:68:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 68 | bool openExplicitFile(auto_ptr& outFile, string fileName); | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.h:20, from ./Clustal.cpp:27: ./alignment/AlignmentOutput.h:69:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 69 | string openOutputFile(auto_ptr& outFile, string prompt, string path, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.h:20, from ./Clustal.cpp:27: ./alignment/AlignmentOutput.h:75:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 75 | auto_ptr clustalOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.h:20, from ./Clustal.cpp:27: ./alignment/AlignmentOutput.h:76:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 76 | auto_ptr gcgOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.h:20, from ./Clustal.cpp:27: ./alignment/AlignmentOutput.h:77:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 77 | auto_ptr nbrfOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.h:20, from ./Clustal.cpp:27: ./alignment/AlignmentOutput.h:78:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 78 | auto_ptr phylipOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.h:20, from ./Clustal.cpp:27: ./alignment/AlignmentOutput.h:79:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 79 | auto_ptr gdeOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.h:20, from ./Clustal.cpp:27: ./alignment/AlignmentOutput.h:80:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 80 | auto_ptr nexusOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.h:20, from ./Clustal.cpp:27: ./alignment/AlignmentOutput.h:81:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 81 | auto_ptr fastaOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./alignment/../substitutionMatrix/globalmatrix.h:8, from ./alignment/Alignment.h:42, from ./main.cpp:10: ./alignment/../substitutionMatrix/SubMatrix.h:96:62: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 96 | void printInFormat(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ ./alignment/../substitutionMatrix/SubMatrix.h:97:66: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 97 | void printVectorToFile(vector& temp, char* name = "tempfile.out"); | ^~~~~~~~~~~~~~ In file included from ./Clustal.cpp:33: ./tree/TreeInterface.h:38:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 38 | auto_ptr getWeightsAndStepsFromDistMat(vector* seqWeights, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.cpp:33: ./tree/TreeInterface.h:57:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 57 | auto_ptr getWeightsAndStepsFromTree(Alignment* alignPtr, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.cpp:33: ./tree/TreeInterface.h:102:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 102 | auto_ptr getWeightsAndStepsFromDistMatNJ(vector* seqWeights, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.cpp:33: ./tree/TreeInterface.h:108:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 108 | auto_ptr getWeightsAndStepsUseOldGuideTreeNJ(DistMatrix* distMat, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.cpp:33: ./tree/TreeInterface.h:133:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 133 | auto_ptr getWeightsAndStepsFromTreeNJ(Alignment* alignPtr, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.cpp:33: ./tree/TreeInterface.h:138:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 138 | auto_ptr getWeightsAndStepsFromDistMatUPGMA(vector* seqWeights, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./Clustal.cpp:33: ./tree/TreeInterface.h:142:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 142 | auto_ptr generateTreeFromDistMatUPGMA(RootedGuideTree* guideTree, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./Clustal.cpp: In member function ‘void clustalw::Clustal::align(std::string*, bool)’: ./Clustal.cpp:162:5: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 162 | auto_ptr progSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ ./Clustal.cpp: In member function ‘void clustalw::Clustal::doAlignUseOldTree(std::string*)’: ./Clustal.cpp:837:5: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 837 | auto_ptr progSteps; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./general/SquareMat.h:9, from ./general/clustalw.h:43, from ./Clustal.h:15, from ./Clustal.cpp:27: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./main.cpp:16: ./fileInput/FileReader.h:42:38: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 42 | void checkInfile(int* nseqs, auto_ptr& fileParser); | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./alignment/Alignment.h:38, from ./main.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./main.cpp:17: ./interface/../alignment/AlignmentOutput.h:68:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 68 | bool openExplicitFile(auto_ptr& outFile, string fileName); | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./alignment/Alignment.h:38, from ./main.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./main.cpp:17: ./interface/../alignment/AlignmentOutput.h:69:31: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 69 | string openOutputFile(auto_ptr& outFile, string prompt, string path, | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./alignment/Alignment.h:38, from ./main.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./main.cpp:17: ./interface/../alignment/AlignmentOutput.h:75:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 75 | auto_ptr clustalOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./alignment/Alignment.h:38, from ./main.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./main.cpp:17: ./interface/../alignment/AlignmentOutput.h:76:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 76 | auto_ptr gcgOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./alignment/Alignment.h:38, from ./main.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./main.cpp:17: ./interface/../alignment/AlignmentOutput.h:77:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 77 | auto_ptr nbrfOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./alignment/Alignment.h:38, from ./main.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./main.cpp:17: ./interface/../alignment/AlignmentOutput.h:78:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 78 | auto_ptr phylipOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./alignment/Alignment.h:38, from ./main.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./main.cpp:17: ./interface/../alignment/AlignmentOutput.h:79:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 79 | auto_ptr gdeOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./alignment/Alignment.h:38, from ./main.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./main.cpp:17: ./interface/../alignment/AlignmentOutput.h:80:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 80 | auto_ptr nexusOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./alignment/Alignment.h:38, from ./main.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./interface/../Clustal.h:20, from ./interface/InteractiveMenu.h:15, from ./main.cpp:17: ./interface/../alignment/AlignmentOutput.h:81:9: warning: ‘template class std::auto_ptr’ is deprecated [-Wdeprecated-declarations] 81 | auto_ptr fastaOutFile; | ^~~~~~~~ In file included from /usr/include/c++/10/bits/locale_conv.h:41, from /usr/include/c++/10/locale:43, from /usr/include/c++/10/iomanip:43, from ./alignment/Alignment.h:38, from ./main.cpp:10: /usr/include/c++/10/bits/unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o clustalw2 FullPairwiseAlign.o FastPairwiseAlign.o MSFFileParser.o FileReader.o PIRFileParser.o RSFFileParser.o GDEFileParser.o InFileStream.o ClustalFileParser.o PearsonFileParser.o FileParser.o EMBLFileParser.o RootedClusterTree.o UPGMAAlgorithm.o Node.o RootedGuideTree.o RootedTreeOutput.o Tree.o ClusterTree.o TreeInterface.o UnRootedClusterTree.o ClusterTreeOutput.o RandomGenerator.o NJTree.o AlignmentSteps.o InteractiveMenu.o CommandLineParser.o SubMatrix.o Iteration.o MSA.o MyersMillerProfileAlign.o ProfileStandard.o ProfileWithSub.o ProfileBase.o LowScoreSegProfile.o OutputFile.o UserParameters.o Utility.o InvalidCombination.o DebugLog.o ClustalWResources.o VectorOutOfRange.o SymMatrix.o Stats.o Help.o Alignment.o AlignmentOutput.o ObjectiveScore.o Sequence.o Clustal.o main.o /usr/bin/ld: Iteration.o: in function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)': ./src/./multipleAlign/Iteration.cpp:231: warning: the use of `tmpnam' is dangerous, better use `mkstemp' make[4]: Leaving directory '/<>/src' make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh: command-omitted: The call to "dh_auto_test -a" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -a dh_prep -a dh_auto_install -a make -j8 install DESTDIR=/<>/clustalw-2.1\+lgpl/debian/clustalw AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/<>' Making install in m4 make[2]: Entering directory '/<>/m4' make[3]: Entering directory '/<>/m4' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Leaving directory '/<>/m4' make[2]: Leaving directory '/<>/m4' Making install in src make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src' make[4]: Entering directory '/<>/src' make[4]: Nothing to be done for 'install-data-am'. /bin/mkdir -p '/<>/debian/clustalw/usr/bin' /usr/bin/install -c clustalw2 '/<>/debian/clustalw/usr/bin' make[4]: Leaving directory '/<>/src' make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>' make[3]: Entering directory '/<>' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install # We have to ask upstream if it is important for them that the binary is named clustalw2 mv /<>/debian/clustalw/usr/bin/clustalw2 /<>/debian/clustalw/usr/bin/clustalw make[1]: Leaving directory '/<>' dh_installdocs -a debian/rules override_dh_installchangelogs make[1]: Entering directory '/<>' dh_installchangelogs debian/CHANGELOG.upstream make[1]: Leaving directory '/<>' dh_installexamples -a dh_installman -a dh_installmenu -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a -a dh_strip -a -a dh_makeshlibs -a -a dh_shlibdeps -a -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 146 INFO: pkgstriptranslations version 146 pkgstriptranslations: processing clustalw (in debian/clustalw); do_strip: , oemstrip: pkgstriptranslations: processing clustalw-dbgsym (in debian/.debhelper/clustalw/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/clustalw/DEBIAN/control, package clustalw, directory debian/clustalw .. removing usr/share/doc/clustalw/changelog.gz pkgstripfiles: Truncating usr/share/doc/clustalw/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 8 cpus) for package clustalw ... pkgstripfiles: No PNG files. dpkg-deb: building package 'clustalw' in '../clustalw_2.1+lgpl-7_riscv64.deb'. pkgstripfiles: processing control file: debian/.debhelper/clustalw/dbgsym-root/DEBIAN/control, package clustalw-dbgsym, directory debian/.debhelper/clustalw/dbgsym-root dpkg-deb: building package 'clustalw-dbgsym' in 'debian/.debhelper/scratch-space/build-clustalw/clustalw-dbgsym_2.1+lgpl-7_riscv64.deb'. Renaming clustalw-dbgsym_2.1+lgpl-7_riscv64.deb to clustalw-dbgsym_2.1+lgpl-7_riscv64.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../clustalw_2.1+lgpl-7_riscv64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2020-11-16T17:34:07Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ clustalw_2.1+lgpl-7_riscv64.changes: ------------------------------------ Format: 1.8 Date: Mon, 16 Nov 2020 09:33:34 +0100 Source: clustalw Binary: clustalw Architecture: riscv64 Version: 2.1+lgpl-7 Distribution: hirsute-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: clustalw - global multiple nucleotide or peptide sequence alignment Changes: clustalw (2.1+lgpl-7) unstable; urgency=medium . [ Jelmer Vernooij ] * Use secure copyright file specification URI. * Trim trailing whitespace. . [ Andreas Tille ] * Standards-Version: 4.5.0 (routine-update) * debhelper-compat 13 (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * Trim trailing whitespace. * Set field Upstream-Contact in debian/copyright. * Remove obsolete field Contact from debian/upstream/metadata (already present in machine-readable debian/copyright). * watch file standard 4 (routine-update) Checksums-Sha1: 1fa4781bfa9d62a5c171f9c4de2350daf7251879 2316348 clustalw-dbgsym_2.1+lgpl-7_riscv64.ddeb ff783c451a1b0d02d91fdfca73fd4fd89f79b55c 5355 clustalw_2.1+lgpl-7_riscv64.buildinfo 117854d59894d938ffad259a57eeef9ae94af170 265456 clustalw_2.1+lgpl-7_riscv64.deb Checksums-Sha256: cce2e3c7f2ba4b6bb333cb14c342160740362a5080358f8c08becc8b38a8e51a 2316348 clustalw-dbgsym_2.1+lgpl-7_riscv64.ddeb 6bf12421b499c27488cbfb912f0121dd20edb4655c1ae469b292373e9f9f3509 5355 clustalw_2.1+lgpl-7_riscv64.buildinfo c5fd1e0d631d1e69404a68403e86c6842892d16bfae4b7af37e928309569c8cf 265456 clustalw_2.1+lgpl-7_riscv64.deb Files: 8ceb59feef03bd0d356c5330041443d0 2316348 debug optional clustalw-dbgsym_2.1+lgpl-7_riscv64.ddeb 4cb68daf28dcdeae7a30a413d565c8c0 5355 science optional clustalw_2.1+lgpl-7_riscv64.buildinfo 41bfdd99873a03283ee651493afe59aa 265456 science optional clustalw_2.1+lgpl-7_riscv64.deb /<>/clustalw_2.1+lgpl-7_riscv64.changes.new could not be renamed to /<>/clustalw_2.1+lgpl-7_riscv64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: clustalw Binary: clustalw clustalw-dbgsym Architecture: riscv64 Version: 2.1+lgpl-7 Checksums-Md5: 8ceb59feef03bd0d356c5330041443d0 2316348 clustalw-dbgsym_2.1+lgpl-7_riscv64.ddeb 41bfdd99873a03283ee651493afe59aa 265456 clustalw_2.1+lgpl-7_riscv64.deb Checksums-Sha1: 1fa4781bfa9d62a5c171f9c4de2350daf7251879 2316348 clustalw-dbgsym_2.1+lgpl-7_riscv64.ddeb 117854d59894d938ffad259a57eeef9ae94af170 265456 clustalw_2.1+lgpl-7_riscv64.deb Checksums-Sha256: cce2e3c7f2ba4b6bb333cb14c342160740362a5080358f8c08becc8b38a8e51a 2316348 clustalw-dbgsym_2.1+lgpl-7_riscv64.ddeb c5fd1e0d631d1e69404a68403e86c6842892d16bfae4b7af37e928309569c8cf 265456 clustalw_2.1+lgpl-7_riscv64.deb Build-Origin: Ubuntu Build-Architecture: riscv64 Build-Date: Mon, 16 Nov 2020 17:34:02 +0000 Build-Path: /<> Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.69-11.1), automake (= 1:1.16.2-4ubuntu1), autopoint (= 0.19.8.1-10build1), autotools-dev (= 20180224.1), base-files (= 11ubuntu16), base-passwd (= 3.5.48), bash (= 5.1~rc2-1ubuntu1), binutils (= 2.35.1-2ubuntu1), binutils-common (= 2.35.1-2ubuntu1), binutils-riscv64-linux-gnu (= 2.35.1-2ubuntu1), bsdextrautils (= 2.36-3ubuntu1), bsdutils (= 1:2.36-3ubuntu1), build-essential (= 12.8ubuntu3), bzip2 (= 1.0.8-4ubuntu2), coreutils (= 8.32-4ubuntu1), cpp (= 4:10.2.0-1ubuntu1), cpp-10 (= 10.2.0-17ubuntu1), dash (= 0.5.11+git20200708+dd9ef66-2), debconf (= 1.5.74), debhelper (= 13.2.1ubuntu1), debianutils (= 4.11.2), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.9.0-1), diffutils (= 1:3.7-3ubuntu1), dpkg (= 1.20.5ubuntu3), dpkg-dev (= 1.20.5ubuntu3), dwz (= 0.13-5), file (= 1:5.38-5), findutils (= 4.7.0-1ubuntu2), g++ (= 4:10.2.0-1ubuntu1), g++-10 (= 10.2.0-17ubuntu1), gcc (= 4:10.2.0-1ubuntu1), gcc-10 (= 10.2.0-17ubuntu1), gcc-10-base (= 10.2.0-17ubuntu1), gettext (= 0.19.8.1-10build1), gettext-base (= 0.19.8.1-10build1), grep (= 3.6-1), groff-base (= 1.22.4-5), gzip (= 1.10-2ubuntu1), hostname (= 3.23), init-system-helpers (= 1.58), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-8), libarchive-zip-perl (= 1.68-1), libatomic1 (= 10.2.0-17ubuntu1), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-3ubuntu2), libaudit1 (= 1:2.8.5-3ubuntu2), libbinutils (= 2.35.1-2ubuntu1), libblkid1 (= 2.36-3ubuntu1), libbz2-1.0 (= 1.0.8-4ubuntu2), libc-bin (= 2.32-0ubuntu5), libc-dev-bin (= 2.32-0ubuntu5), libc6 (= 2.32-0ubuntu5), libc6-dev (= 2.32-0ubuntu5), libcap-ng0 (= 0.7.9-2.2), libcc1-0 (= 10.2.0-17ubuntu1), libcom-err2 (= 1.45.6-1ubuntu1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.17-1ubuntu1), libcrypt1 (= 1:4.4.17-1ubuntu1), libctf-nobfd0 (= 2.35.1-2ubuntu1), libctf0 (= 2.35.1-2ubuntu1), libdb5.3 (= 5.3.28+dfsg1-0.6ubuntu3), libdebconfclient0 (= 0.255ubuntu1), libdebhelper-perl (= 13.2.1ubuntu1), libdpkg-perl (= 1.20.5ubuntu3), libelf1 (= 0.182-1), libffi8ubuntu1 (= 3.4~20200819gead65ca871-0ubuntu3), libfile-stripnondeterminism-perl (= 1.9.0-1), libgcc-10-dev (= 10.2.0-17ubuntu1), libgcc-s1 (= 10.2.0-17ubuntu1), libgcrypt20 (= 1.8.7-2ubuntu1), libgdbm-compat4 (= 1.18.1-5.1), libgdbm6 (= 1.18.1-5.1), libglib2.0-0 (= 2.66.2-1), libgmp10 (= 2:6.2.0+dfsg-6ubuntu1), libgomp1 (= 10.2.0-17ubuntu1), libgpg-error0 (= 1.38-2), libgssapi-krb5-2 (= 1.17-10), libicu67 (= 67.1-4), libisl22 (= 0.22.1-1), libk5crypto3 (= 1.17-10), libkeyutils1 (= 1.6.1-2ubuntu1), libkrb5-3 (= 1.17-10), libkrb5support0 (= 1.17-10), liblz4-1 (= 1.9.2-2), liblzma5 (= 5.2.4-1ubuntu1), libmagic-mgc (= 1:5.38-5), libmagic1 (= 1:5.38-5), libmount1 (= 2.36-3ubuntu1), libmpc3 (= 1.2.0-1), libmpfr6 (= 4.1.0-3), libnsl-dev (= 1.3.0-0ubuntu3), libnsl2 (= 1.3.0-0ubuntu3), libpam-modules (= 1.3.1-5ubuntu6), libpam-modules-bin (= 1.3.1-5ubuntu6), libpam-runtime (= 1.3.1-5ubuntu6), libpam0g (= 1.3.1-5ubuntu6), libpcre2-8-0 (= 10.34-7), libpcre3 (= 2:8.39-13), libperl5.32 (= 5.32.0-5), libpipeline1 (= 1.5.3-1), libselinux1 (= 3.1-2build1), libsigsegv2 (= 2.12-2build1), libsmartcols1 (= 2.36-3ubuntu1), libssl1.1 (= 1.1.1f-1ubuntu4), libstdc++-10-dev (= 10.2.0-17ubuntu1), libstdc++6 (= 10.2.0-17ubuntu1), libsub-override-perl (= 0.09-2), libsystemd0 (= 246.6-2ubuntu1), libtinfo6 (= 6.2+20200918-1), libtirpc-common (= 1.2.6-3), libtirpc-dev (= 1.2.6-3), libtirpc3 (= 1.2.6-3), libtool (= 2.4.6-14), libuchardet0 (= 0.0.7-1), libudev1 (= 246.6-2ubuntu1), libunistring2 (= 0.9.10-4), libuuid1 (= 2.36-3ubuntu1), libxml2 (= 2.9.10+dfsg-6.2), libzstd1 (= 1.4.5+dfsg-4), linux-libc-dev (= 5.8.0-26.27), login (= 1:4.8.1-1ubuntu6), lsb-base (= 11.1.0ubuntu2), m4 (= 1.4.18-4), make (= 4.3-4ubuntu1), man-db (= 2.9.3-2), mawk (= 1.3.4.20200120-2), ncurses-base (= 6.2+20200918-1), ncurses-bin (= 6.2+20200918-1), patch (= 2.7.6-6), perl (= 5.32.0-5), perl-base (= 5.32.0-5), perl-modules-5.32 (= 5.32.0-5), po-debconf (= 1.0.21), rpcsvc-proto (= 1.4.2-0ubuntu4), sed (= 4.7-1ubuntu1), sensible-utils (= 0.0.13), sysvinit-utils (= 2.96-5ubuntu1), tar (= 1.30+dfsg-7), util-linux (= 2.36-3ubuntu1), xz-utils (= 5.2.4-1ubuntu1), zlib1g (= 1:1.2.11.dfsg-2ubuntu4) Environment: DEB_BUILD_OPTIONS="nocheck parallel=8" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1605515614" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ clustalw_2.1+lgpl-7_riscv64.deb ------------------------------- new Debian package, version 2.0. size 265456 bytes: control archive=1496 bytes. 1175 bytes, 23 lines control 878 bytes, 12 lines md5sums 199 bytes, 7 lines * postinst #!/bin/sh 174 bytes, 5 lines * postrm #!/bin/sh Package: clustalw Version: 2.1+lgpl-7 Architecture: riscv64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 620 Depends: libc6 (>= 2.27), libgcc-s1 (>= 3.4), libstdc++6 (>= 5.2) Suggests: clustalx, seaview Enhances: bioperl-run, emboss, t-coffee Section: science Priority: optional Homepage: http://www.clustal.org/clustal2/ Description: global multiple nucleotide or peptide sequence alignment This program performs an alignment of multiple nucleotide or amino acid sequences. It recognizes the format of input sequences and whether the sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output format may be selected from in various formats for multiple alignments such as Phylip or FASTA. Clustal W is very well accepted. . The output of Clustal W can be edited manually but preferably with an alignment editor like SeaView or within its companion Clustal X. When building a model from your alignment, this can be applied for improved database searches. The Debian package hmmer creates such in form of an HMM. drwxr-xr-x root/root 0 2020-11-16 08:33 ./ drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/ drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/bin/ -rwxr-xr-x root/root 559208 2020-11-16 08:33 ./usr/bin/clustalw drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/share/ drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/share/clustalw/ -rw-r--r-- root/root 33751 2020-11-16 08:33 ./usr/share/clustalw/clustalw_help drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/share/doc/clustalw/ -rw-r--r-- root/root 715 2010-09-09 14:26 ./usr/share/doc/clustalw/README -rw-r--r-- root/root 821 2020-11-16 08:33 ./usr/share/doc/clustalw/README.Debian -rw-r--r-- root/root 1952 2020-11-16 08:33 ./usr/share/doc/clustalw/changelog.Debian.gz -rw-r--r-- root/root 2126 2020-11-16 08:33 ./usr/share/doc/clustalw/copyright drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/share/doc/clustalw/examples/ drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/share/doc/clustalw/examples/tests.clustalw/ -rw-r--r-- root/root 552 2020-11-16 08:33 ./usr/share/doc/clustalw/examples/tests.clustalw/Makefile -rw-r--r-- root/root 1007 2020-11-16 08:33 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc.data -rw-r--r-- root/root 1013 2020-11-16 08:33 ./usr/share/doc/clustalw/examples/tests.clustalw/nuc2.data -rw-r--r-- root/root 157 2020-11-16 08:33 ./usr/share/doc/clustalw/examples/tests.clustalw/seq drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/share/man/ drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/share/man/man1/ -rw-r--r-- root/root 4184 2020-11-16 08:33 ./usr/share/man/man1/clustalw.1.gz drwxr-xr-x root/root 0 2020-11-16 08:33 ./usr/share/menu/ -rw-r--r-- root/root 193 2020-11-16 08:33 ./usr/share/menu/clustalw +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: riscv64 Build Type: any Build-Space: 71296 Build-Time: 427 Distribution: hirsute-proposed Host Architecture: riscv64 Install-Time: 96 Job: clustalw_2.1+lgpl-7.dsc Machine Architecture: riscv64 Package: clustalw Package-Time: 554 Source-Version: 2.1+lgpl-7 Space: 71296 Status: successful Version: 2.1+lgpl-7 -------------------------------------------------------------------------------- Finished at 2020-11-16T17:34:07Z Build needed 00:09:14, 71296k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=hirsute --arch=riscv64 PACKAGEBUILD-20306402 Scanning for processes to kill in build PACKAGEBUILD-20306402 RUN: /usr/share/launchpad-buildd/bin/in-target umount-chroot --backend=chroot --series=hirsute --arch=riscv64 PACKAGEBUILD-20306402 Stopping target for build PACKAGEBUILD-20306402 RUN: /usr/share/launchpad-buildd/bin/in-target remove-build --backend=chroot --series=hirsute --arch=riscv64 PACKAGEBUILD-20306402 Removing build PACKAGEBUILD-20306402