https://launchpad.net/ubuntu/+source/libbpp-seq/2.4.1-10/+build/26502251 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lcy02-amd64-081 5.4.0-155-generic #172-Ubuntu SMP Fri Jul 7 16:10:02 UTC 2023 x86_64 Buildd toolchain package versions: launchpad-buildd_234~642~ubuntu20.04.1 python3-lpbuildd_234~642~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.11 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1.1. Syncing the system clock with the buildd NTP service... 13 Aug 17:08:23 ntpdate[8564]: adjust time server 10.131.248.1 offset -0.001859 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26502251 --image-type chroot /home/buildd/filecache-default/1fc1752c0976ad9eb0e621fd063fde252dab04e3 Creating target for build PACKAGEBUILD-26502251 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26502251 Starting target for build PACKAGEBUILD-26502251 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26502251 'deb http://ftpmaster.internal/ubuntu mantic main universe' 'deb http://ftpmaster.internal/ubuntu mantic-security main universe' 'deb http://ftpmaster.internal/ubuntu mantic-updates main universe' 'deb http://ftpmaster.internal/ubuntu mantic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-26502251 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26502251 Updating target for build PACKAGEBUILD-26502251 Get:1 http://ftpmaster.internal/ubuntu mantic InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu mantic-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu mantic-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu mantic-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu mantic/main amd64 Packages [1399 kB] Get:6 http://ftpmaster.internal/ubuntu mantic/main Translation-en [512 kB] Get:7 http://ftpmaster.internal/ubuntu mantic/universe amd64 Packages [14.7 MB] Get:8 http://ftpmaster.internal/ubuntu mantic/universe Translation-en [5971 kB] Get:9 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 Packages [107 kB] Get:10 http://ftpmaster.internal/ubuntu mantic-proposed/main Translation-en [32.7 kB] Get:11 http://ftpmaster.internal/ubuntu mantic-proposed/universe amd64 Packages [530 kB] Get:12 http://ftpmaster.internal/ubuntu mantic-proposed/universe Translation-en [157 kB] Fetched 24.0 MB in 3s (9481 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: g++-12 libstdc++-12-dev Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: cpp-13 g++-13 gcc-13 gcc-13-base libgcc-13-dev libhwasan0 libproc2-0 libsframe1 libstdc++-13-dev systemd-dev The following packages will be upgraded: adduser advancecomp apt base-files bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils build-essential ca-certificates coreutils cpp cpp-12 dash debconf debianutils diffutils dpkg dpkg-dev e2fsprogs fakeroot findutils g++ g++-12 gcc gcc-12 gcc-12-base gpg gpg-agent gpgconf gpgv grep hostname init init-system-helpers libacl1 libapparmor1 libapt-pkg6.0 libargon2-1 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdb5.3 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libext2fs2 libfakeroot libfdisk1 libgcc-12-dev libgcc-s1 libgcrypt20 libgmp10 libgnutls30 libgomp1 libgprofng0 libgssapi-krb5-2 libhogweed6 libidn2-0 libip4tc2 libisl23 libitm1 libk5crypto3 libkmod2 libkrb5-3 libkrb5support0 liblsan0 liblzma5 libmd0 libmount1 libmpfr6 libncurses6 libncursesw6 libnettle8 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libperl5.36 libpng16-16 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsmartcols1 libsqlite3-0 libss2 libssl3 libstdc++-12-dev libstdc++6 libsystemd-shared libsystemd0 libtasn1-6 libtinfo6 libtsan2 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev logsave lsb-base lto-disabled-list mawk mount ncurses-base ncurses-bin openssl perl perl-base perl-modules-5.36 pkgbinarymangler procps readline-common sed sensible-utils systemd systemd-sysv sysvinit-utils tar tzdata usrmerge util-linux util-linux-extra xz-utils zlib1g 149 upgraded, 10 newly installed, 0 to remove and 0 not upgraded. Need to get 163 MB of archives. After this operation, 172 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu mantic/main amd64 libcrypt-dev amd64 1:4.4.36-2 [112 kB] Get:2 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libc6-dev amd64 2.38-1ubuntu3 [2115 kB] Get:3 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libc-dev-bin amd64 2.38-1ubuntu3 [20.3 kB] Get:4 http://ftpmaster.internal/ubuntu mantic/main amd64 libcrypt1 amd64 1:4.4.36-2 [82.2 kB] Get:5 http://ftpmaster.internal/ubuntu mantic/main amd64 linux-libc-dev amd64 6.3.0-7.7 [1544 kB] Get:6 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libc6 amd64 2.38-1ubuntu3 [3246 kB] Get:7 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libc-bin amd64 2.38-1ubuntu3 [682 kB] Get:8 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 gcc-13-base amd64 13.2.0-2ubuntu1 [42.9 kB] Get:9 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libgcc-s1 amd64 13.2.0-2ubuntu1 [62.4 kB] Get:10 http://ftpmaster.internal/ubuntu mantic/main amd64 base-files amd64 13ubuntu1 [74.0 kB] Get:11 http://ftpmaster.internal/ubuntu mantic/main amd64 debianutils amd64 5.8-1 [103 kB] Get:12 http://ftpmaster.internal/ubuntu mantic/main amd64 bash amd64 5.2.15-2ubuntu1 [795 kB] Get:13 http://ftpmaster.internal/ubuntu mantic/main amd64 bsdutils amd64 1:2.38.1-5ubuntu2 [91.5 kB] Get:14 http://ftpmaster.internal/ubuntu mantic/main amd64 coreutils amd64 9.1-1ubuntu2 [1407 kB] Get:15 http://ftpmaster.internal/ubuntu mantic/main amd64 liblzma5 amd64 5.4.1-0.2 [125 kB] Get:16 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libstdc++6 amd64 13.2.0-2ubuntu1 [771 kB] Get:17 http://ftpmaster.internal/ubuntu mantic/main amd64 libzstd1 amd64 1.5.5+dfsg2-1ubuntu2 [295 kB] Get:18 http://ftpmaster.internal/ubuntu mantic/main amd64 libgcrypt20 amd64 1.10.2-2ubuntu1 [531 kB] Get:19 http://ftpmaster.internal/ubuntu mantic/main amd64 libacl1 amd64 2.3.1-3 [16.4 kB] Get:20 http://ftpmaster.internal/ubuntu mantic/main amd64 libapparmor1 amd64 3.0.8-1ubuntu4 [46.2 kB] Get:21 http://ftpmaster.internal/ubuntu mantic/main amd64 libaudit-common all 1:3.1.1-1 [5426 B] Get:22 http://ftpmaster.internal/ubuntu mantic/main amd64 libcap-ng0 amd64 0.8.3-1build2 [15.3 kB] Get:23 http://ftpmaster.internal/ubuntu mantic/main amd64 libaudit1 amd64 1:3.1.1-1 [46.1 kB] Get:24 http://ftpmaster.internal/ubuntu mantic/main amd64 libblkid1 amd64 2.38.1-5ubuntu2 [111 kB] Get:25 http://ftpmaster.internal/ubuntu mantic/main amd64 libcap2 amd64 1:2.66-4ubuntu1 [29.4 kB] Get:26 http://ftpmaster.internal/ubuntu mantic/main amd64 libip4tc2 amd64 1.8.9-2ubuntu2 [22.2 kB] Get:27 http://ftpmaster.internal/ubuntu mantic/main amd64 libperl5.36 amd64 5.36.0-7ubuntu1 [4834 kB] Get:28 http://ftpmaster.internal/ubuntu mantic/main amd64 perl amd64 5.36.0-7ubuntu1 [235 kB] Get:29 http://ftpmaster.internal/ubuntu mantic/main amd64 perl-base amd64 5.36.0-7ubuntu1 [1784 kB] Get:30 http://ftpmaster.internal/ubuntu mantic/main amd64 perl-modules-5.36 all 5.36.0-7ubuntu1 [2984 kB] Get:31 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libdb5.3 amd64 5.3.28+dfsg2-2 [736 kB] Get:32 http://ftpmaster.internal/ubuntu mantic/main amd64 zlib1g amd64 1:1.2.13.dfsg-1ubuntu5 [62.7 kB] Get:33 http://ftpmaster.internal/ubuntu mantic/main amd64 debconf all 1.5.82 [125 kB] Get:34 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libssl3 amd64 3.0.10-1ubuntu2 [1929 kB] Get:35 http://ftpmaster.internal/ubuntu mantic/main amd64 libkmod2 amd64 30+20230519-1ubuntu2 [51.1 kB] Get:36 http://ftpmaster.internal/ubuntu mantic/main amd64 libpcre2-8-0 amd64 10.42-2 [229 kB] Get:37 http://ftpmaster.internal/ubuntu mantic/main amd64 libselinux1 amd64 3.5-1 [78.2 kB] Get:38 http://ftpmaster.internal/ubuntu mantic/main amd64 libmount1 amd64 2.38.1-5ubuntu2 [121 kB] Get:39 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam0g amd64 1.5.2-6ubuntu1 [65.9 kB] Get:40 http://ftpmaster.internal/ubuntu mantic/main amd64 libseccomp2 amd64 2.5.4-1ubuntu3 [49.1 kB] Get:41 http://ftpmaster.internal/ubuntu mantic/main amd64 systemd-sysv amd64 253.5-1ubuntu1 [11.5 kB] Get:42 http://ftpmaster.internal/ubuntu mantic/main amd64 systemd amd64 253.5-1ubuntu1 [3071 kB] Get:43 http://ftpmaster.internal/ubuntu mantic/main amd64 libsystemd-shared amd64 253.5-1ubuntu1 [1870 kB] Get:44 http://ftpmaster.internal/ubuntu mantic/main amd64 systemd-dev all 253.5-1ubuntu1 [78.5 kB] Get:45 http://ftpmaster.internal/ubuntu mantic/main amd64 libargon2-1 amd64 0~20190702+dfsg-3 [20.3 kB] Get:46 http://ftpmaster.internal/ubuntu mantic/main amd64 libudev1 amd64 253.5-1ubuntu1 [159 kB] Get:47 http://ftpmaster.internal/ubuntu mantic/main amd64 libdevmapper1.02.1 amd64 2:1.02.185-2ubuntu1 [139 kB] Get:48 http://ftpmaster.internal/ubuntu mantic/main amd64 libuuid1 amd64 2.38.1-5ubuntu2 [32.7 kB] Get:49 http://ftpmaster.internal/ubuntu mantic/main amd64 libcryptsetup12 amd64 2:2.6.1-4ubuntu1 [243 kB] Get:50 http://ftpmaster.internal/ubuntu mantic/main amd64 libfdisk1 amd64 2.38.1-5ubuntu2 [144 kB] Get:51 http://ftpmaster.internal/ubuntu mantic/main amd64 libp11-kit0 amd64 0.24.1-2ubuntu1 [248 kB] Get:52 http://ftpmaster.internal/ubuntu mantic/main amd64 mount amd64 2.38.1-5ubuntu2 [114 kB] Get:53 http://ftpmaster.internal/ubuntu mantic/main amd64 libsystemd0 amd64 253.5-1ubuntu1 [407 kB] Get:54 http://ftpmaster.internal/ubuntu mantic/main amd64 libapt-pkg6.0 amd64 2.7.3 [949 kB] Get:55 http://ftpmaster.internal/ubuntu mantic/main amd64 tar amd64 1.34+dfsg-1.2ubuntu1 [293 kB] Get:56 http://ftpmaster.internal/ubuntu mantic/main amd64 dpkg amd64 1.21.22ubuntu1 [1393 kB] Get:57 http://ftpmaster.internal/ubuntu mantic/main amd64 dash amd64 0.5.12-6ubuntu1 [90.0 kB] Get:58 http://ftpmaster.internal/ubuntu mantic/main amd64 diffutils amd64 1:3.8-4 [176 kB] Get:59 http://ftpmaster.internal/ubuntu mantic/main amd64 findutils amd64 4.9.0-5 [299 kB] Get:60 http://ftpmaster.internal/ubuntu mantic/main amd64 grep amd64 3.11-2 [161 kB] Get:61 http://ftpmaster.internal/ubuntu mantic/main amd64 hostname amd64 3.23+nmu1ubuntu1 [11.0 kB] Get:62 http://ftpmaster.internal/ubuntu mantic/main amd64 libncurses6 amd64 6.4+20230625-2 [112 kB] Get:63 http://ftpmaster.internal/ubuntu mantic/main amd64 libncursesw6 amd64 6.4+20230625-2 [149 kB] Get:64 http://ftpmaster.internal/ubuntu mantic/main amd64 libtinfo6 amd64 6.4+20230625-2 [108 kB] Get:65 http://ftpmaster.internal/ubuntu mantic/main amd64 ncurses-bin amd64 6.4+20230625-2 [185 kB] Get:66 http://ftpmaster.internal/ubuntu mantic/main amd64 sed amd64 4.9-1 [193 kB] Get:67 http://ftpmaster.internal/ubuntu mantic/main amd64 libsmartcols1 amd64 2.38.1-5ubuntu2 [59.5 kB] Get:68 http://ftpmaster.internal/ubuntu mantic/main amd64 util-linux-extra amd64 2.38.1-5ubuntu2 [83.8 kB] Get:69 http://ftpmaster.internal/ubuntu mantic/main amd64 util-linux amd64 2.38.1-5ubuntu2 [1075 kB] Get:70 http://ftpmaster.internal/ubuntu mantic/main amd64 init-system-helpers all 1.65.2ubuntu1 [38.7 kB] Get:71 http://ftpmaster.internal/ubuntu mantic/main amd64 ncurses-base all 6.4+20230625-2 [24.5 kB] Get:72 http://ftpmaster.internal/ubuntu mantic/main amd64 sysvinit-utils amd64 3.07-1ubuntu1 [33.2 kB] Get:73 http://ftpmaster.internal/ubuntu mantic/main amd64 lsb-base all 11.6 [4606 B] Get:74 http://ftpmaster.internal/ubuntu mantic/main amd64 adduser all 3.137ubuntu1 [101 kB] Get:75 http://ftpmaster.internal/ubuntu mantic/main amd64 gpgv amd64 2.2.40-1.1ubuntu1 [140 kB] Get:76 http://ftpmaster.internal/ubuntu mantic/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2ubuntu3 [255 kB] Get:77 http://ftpmaster.internal/ubuntu mantic/main amd64 libnettle8 amd64 3.9.1-2 [182 kB] Get:78 http://ftpmaster.internal/ubuntu mantic/main amd64 libhogweed6 amd64 3.9.1-2 [199 kB] Get:79 http://ftpmaster.internal/ubuntu mantic/main amd64 libidn2-0 amd64 2.3.4-1 [108 kB] Get:80 http://ftpmaster.internal/ubuntu mantic/main amd64 libtasn1-6 amd64 4.19.0-3 [44.5 kB] Get:81 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libgnutls30 amd64 3.8.1-3ubuntu1 [991 kB] Get:82 http://ftpmaster.internal/ubuntu mantic/main amd64 apt amd64 2.7.3 [1375 kB] Get:83 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam-modules-bin amd64 1.5.2-6ubuntu1 [47.3 kB] Get:84 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam-modules amd64 1.5.2-6ubuntu1 [284 kB] Get:85 http://ftpmaster.internal/ubuntu mantic/main amd64 logsave amd64 1.47.0-2ubuntu1 [22.0 kB] Get:86 http://ftpmaster.internal/ubuntu mantic/main amd64 libext2fs2 amd64 1.47.0-2ubuntu1 [219 kB] Get:87 http://ftpmaster.internal/ubuntu mantic/main amd64 e2fsprogs amd64 1.47.0-2ubuntu1 [597 kB] Get:88 http://ftpmaster.internal/ubuntu mantic/main amd64 init amd64 1.65.2ubuntu1 [5508 B] Get:89 http://ftpmaster.internal/ubuntu mantic/main amd64 libattr1 amd64 1:2.5.1-4 [12.4 kB] Get:90 http://ftpmaster.internal/ubuntu mantic/main amd64 libdebconfclient0 amd64 0.270ubuntu1 [11.1 kB] Get:91 http://ftpmaster.internal/ubuntu mantic/main amd64 libmd0 amd64 1.1.0-1 [26.9 kB] Get:92 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam-runtime all 1.5.2-6ubuntu1 [41.5 kB] Get:93 http://ftpmaster.internal/ubuntu mantic/main amd64 libsemanage-common all 3.5-1 [9890 B] Get:94 http://ftpmaster.internal/ubuntu mantic/main amd64 libsepol2 amd64 3.5-1 [301 kB] Get:95 http://ftpmaster.internal/ubuntu mantic/main amd64 libsemanage2 amd64 3.5-1 [93.3 kB] Get:96 http://ftpmaster.internal/ubuntu mantic/main amd64 usrmerge all 35ubuntu1 [58.2 kB] Get:97 http://ftpmaster.internal/ubuntu mantic/main amd64 libcom-err2 amd64 1.47.0-2ubuntu1 [22.2 kB] Get:98 http://ftpmaster.internal/ubuntu mantic/main amd64 libproc2-0 amd64 2:4.0.3-1ubuntu1 [55.9 kB] Get:99 http://ftpmaster.internal/ubuntu mantic/main amd64 libss2 amd64 1.47.0-2ubuntu1 [16.7 kB] Get:100 http://ftpmaster.internal/ubuntu mantic/main amd64 mawk amd64 1.3.4.20230730-1 [125 kB] Get:101 http://ftpmaster.internal/ubuntu mantic/main amd64 procps amd64 2:4.0.3-1ubuntu1 [609 kB] Get:102 http://ftpmaster.internal/ubuntu mantic/main amd64 sensible-utils all 0.0.20 [19.6 kB] Get:103 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 openssl amd64 3.0.10-1ubuntu2 [1187 kB] Get:104 http://ftpmaster.internal/ubuntu mantic/main amd64 ca-certificates all 20230311ubuntu1 [152 kB] Get:105 http://ftpmaster.internal/ubuntu mantic/main amd64 libgssapi-krb5-2 amd64 1.20.1-2 [142 kB] Get:106 http://ftpmaster.internal/ubuntu mantic/main amd64 libkrb5-3 amd64 1.20.1-2 [346 kB] Get:107 http://ftpmaster.internal/ubuntu mantic/main amd64 libkrb5support0 amd64 1.20.1-2 [32.7 kB] Get:108 http://ftpmaster.internal/ubuntu mantic/main amd64 libk5crypto3 amd64 1.20.1-2 [81.1 kB] Get:109 http://ftpmaster.internal/ubuntu mantic/main amd64 readline-common all 8.2-1.3 [55.7 kB] Get:110 http://ftpmaster.internal/ubuntu mantic/main amd64 libreadline8 amd64 8.2-1.3 [151 kB] Get:111 http://ftpmaster.internal/ubuntu mantic/main amd64 libsqlite3-0 amd64 3.42.0-1 [668 kB] Get:112 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 tzdata all 2023c-9ubuntu1 [270 kB] Get:113 http://ftpmaster.internal/ubuntu mantic/main amd64 libpng16-16 amd64 1.6.40-1 [186 kB] Get:114 http://ftpmaster.internal/ubuntu mantic/main amd64 xz-utils amd64 5.4.1-0.2 [270 kB] Get:115 http://ftpmaster.internal/ubuntu mantic/main amd64 advancecomp amd64 2.5-1 [180 kB] Get:116 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libgprofng0 amd64 2.41-4ubuntu1 [847 kB] Get:117 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libctf0 amd64 2.41-4ubuntu1 [94.1 kB] Get:118 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libctf-nobfd0 amd64 2.41-4ubuntu1 [96.4 kB] Get:119 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.41-4ubuntu1 [2469 kB] Get:120 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libbinutils amd64 2.41-4ubuntu1 [561 kB] Get:121 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 binutils amd64 2.41-4ubuntu1 [18.0 kB] Get:122 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 binutils-common amd64 2.41-4ubuntu1 [248 kB] Get:123 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libsframe1 amd64 2.41-4ubuntu1 [14.6 kB] Get:124 http://ftpmaster.internal/ubuntu mantic/main amd64 libisl23 amd64 0.26-3 [741 kB] Get:125 http://ftpmaster.internal/ubuntu mantic/main amd64 libmpfr6 amd64 4.2.0-1 [352 kB] Get:126 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 cpp-13 amd64 13.2.0-2ubuntu1 [10.7 MB] Get:127 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 g++ amd64 4:13.2.0-1ubuntu1 [1122 B] Get:128 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 gcc amd64 4:13.2.0-1ubuntu1 [5168 B] Get:129 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 cpp amd64 4:13.2.0-1ubuntu1 [28.9 kB] Get:130 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libcc1-0 amd64 13.2.0-2ubuntu1 [48.1 kB] Get:131 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libgomp1 amd64 13.2.0-2ubuntu1 [142 kB] Get:132 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libitm1 amd64 13.2.0-2ubuntu1 [29.3 kB] Get:133 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libatomic1 amd64 13.2.0-2ubuntu1 [10.4 kB] Get:134 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libasan8 amd64 13.2.0-2ubuntu1 [2835 kB] Get:135 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 liblsan0 amd64 13.2.0-2ubuntu1 [1203 kB] Get:136 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libubsan1 amd64 13.2.0-2ubuntu1 [1105 kB] Get:137 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libquadmath0 amd64 13.2.0-2ubuntu1 [153 kB] Get:138 http://ftpmaster.internal/ubuntu mantic-proposed/universe amd64 g++-12 amd64 12.3.0-7ubuntu2 [12.1 MB] Get:139 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 gcc-12 amd64 12.3.0-7ubuntu2 [21.6 MB] Get:140 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 cpp-12 amd64 12.3.0-7ubuntu2 [10.7 MB] Get:141 http://ftpmaster.internal/ubuntu mantic-proposed/universe amd64 libstdc++-12-dev amd64 12.3.0-7ubuntu2 [2180 kB] Get:142 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libgcc-12-dev amd64 12.3.0-7ubuntu2 [2574 kB] Get:143 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libtsan2 amd64 13.2.0-2ubuntu1 [2606 kB] Get:144 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 gcc-12-base amd64 12.3.0-7ubuntu2 [43.2 kB] Get:145 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libhwasan0 amd64 13.2.0-2ubuntu1 [1262 kB] Get:146 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libgcc-13-dev amd64 13.2.0-2ubuntu1 [2686 kB] Get:147 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 gcc-13 amd64 13.2.0-2ubuntu1 [21.5 MB] Get:148 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libstdc++-13-dev amd64 13.2.0-2ubuntu1 [2348 kB] Get:149 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 g++-13 amd64 13.2.0-2ubuntu1 [12.1 MB] Get:150 http://ftpmaster.internal/ubuntu mantic/main amd64 dpkg-dev all 1.21.22ubuntu1 [1118 kB] Get:151 http://ftpmaster.internal/ubuntu mantic/main amd64 libdpkg-perl all 1.21.22ubuntu1 [247 kB] Get:152 http://ftpmaster.internal/ubuntu mantic/main amd64 lto-disabled-list all 42 [12.4 kB] Get:153 http://ftpmaster.internal/ubuntu mantic/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] Get:154 http://ftpmaster.internal/ubuntu mantic/main amd64 libfakeroot amd64 1.32.1-1 [31.9 kB] Get:155 http://ftpmaster.internal/ubuntu mantic/main amd64 fakeroot amd64 1.32.1-1 [60.1 kB] Get:156 http://ftpmaster.internal/ubuntu mantic/main amd64 gpg amd64 2.2.40-1.1ubuntu1 [523 kB] Get:157 http://ftpmaster.internal/ubuntu mantic/main amd64 gpgconf amd64 2.2.40-1.1ubuntu1 [96.3 kB] Get:158 http://ftpmaster.internal/ubuntu mantic/main amd64 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Processing triggers for ca-certificates (20230311ubuntu1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-26502251 amd64 mantic-proposed -c chroot:build-PACKAGEBUILD-26502251 --arch=amd64 --dist=mantic-proposed --nolog -A libbpp-seq_2.4.1-10.dsc Initiating build PACKAGEBUILD-26502251 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-155-generic #172-Ubuntu SMP Fri Jul 7 16:10:02 UTC 2023 x86_64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on lcy02-amd64-081.buildd +==============================================================================+ | libbpp-seq 2.4.1-10 (amd64) Sun, 13 Aug 2023 17:08:52 +0000 | +==============================================================================+ Package: libbpp-seq Version: 2.4.1-10 Source Version: 2.4.1-10 Distribution: mantic-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-26502251/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/libbpp-seq-FvM1M5/resolver-eIDIas' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- libbpp-seq_2.4.1-10.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/libbpp-seq-FvM1M5/libbpp-seq-2.4.1' with '<>' I: NOTICE: Log filtering will replace 'build/libbpp-seq-FvM1M5' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), cmake, d-shlibs, libbpp-core-dev, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), cmake, d-shlibs, libbpp-core-dev, 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 [391 B] Get:5 copy:/<>/apt_archive ./ Packages [472 B] Fetched 1820 B in 0s (0 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: g++-12 libstdc++-12-dev Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils cmake cmake-data d-shlibs debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13 libbpp-core-dev libbpp-core4 libbrotli1 libcurl4 libdebhelper-perl libdw1 libelf1 libexpat1 libfile-stripnondeterminism-perl libicu72 libjsoncpp25 libldap2 libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libssh-4 libsub-override-perl libtool libuchardet0 libuv1 libxml2 m4 man-db po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc cmake-doc cmake-format elpa-cmake-mode ninja-build dh-make gettext-doc libasprintf-dev libgettextpo-dev groff lrzip libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils cmake cmake-data d-shlibs debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13 libbpp-core-dev libbpp-core4 libbrotli1 libcurl4 libdebhelper-perl libdw1 libelf1 libexpat1 libfile-stripnondeterminism-perl libicu72 libjsoncpp25 libldap2 libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libssh-4 libsub-override-perl libtool libuchardet0 libuv1 libxml2 m4 man-db po-debconf sbuild-build-depends-main-dummy 0 upgraded, 51 newly installed, 0 to remove and 0 not upgraded. Need to get 35.9 MB of archives. After this operation, 134 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [690 B] Get:2 http://ftpmaster.internal/ubuntu mantic/main amd64 libelf1 amd64 0.189-4 [56.3 kB] Get:3 http://ftpmaster.internal/ubuntu mantic/main amd64 libexpat1 amd64 2.5.0-2 [85.2 kB] Get:4 http://ftpmaster.internal/ubuntu mantic/main amd64 libicu72 amd64 72.1-3ubuntu2 [10.8 MB] Get:5 http://ftpmaster.internal/ubuntu mantic/main amd64 libxml2 amd64 2.9.14+dfsg-1.3 [764 kB] Get:6 http://ftpmaster.internal/ubuntu mantic/main amd64 bsdextrautils amd64 2.38.1-5ubuntu2 [71.0 kB] Get:7 http://ftpmaster.internal/ubuntu mantic/main amd64 libmagic-mgc amd64 1:5.44-3 [293 kB] Get:8 http://ftpmaster.internal/ubuntu mantic/main amd64 libmagic1 amd64 1:5.44-3 [85.6 kB] Get:9 http://ftpmaster.internal/ubuntu mantic/main amd64 file amd64 1:5.44-3 [21.8 kB] Get:10 http://ftpmaster.internal/ubuntu mantic/main amd64 gettext-base amd64 0.21-13 [38.1 kB] Get:11 http://ftpmaster.internal/ubuntu mantic/main amd64 libuchardet0 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amd64 autopoint all 0.21-13 [422 kB] Get:23 http://ftpmaster.internal/ubuntu mantic/main amd64 libarchive13 amd64 3.6.2-1ubuntu1 [380 kB] Get:24 http://ftpmaster.internal/ubuntu mantic/main amd64 libbrotli1 amd64 1.0.9-2build8 [309 kB] Get:25 http://ftpmaster.internal/ubuntu mantic/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-3 [20.2 kB] Get:26 http://ftpmaster.internal/ubuntu mantic/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-3 [53.4 kB] Get:27 http://ftpmaster.internal/ubuntu mantic/main amd64 libldap2 amd64 2.6.6+dfsg-1~exp1ubuntu1 [193 kB] Get:28 http://ftpmaster.internal/ubuntu mantic/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2build4 [58.2 kB] Get:29 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libssh-4 amd64 0.10.5-2 [187 kB] Get:30 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libcurl4 amd64 8.2.1-1ubuntu2 [319 kB] Get:31 http://ftpmaster.internal/ubuntu mantic/main amd64 libjsoncpp25 amd64 1.9.5-6 [82.3 kB] Get:32 http://ftpmaster.internal/ubuntu mantic/main amd64 librhash0 amd64 1.4.3-3 [128 kB] Get:33 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 cmake-data all 3.27.2-1 [2127 kB] Get:34 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 cmake amd64 3.27.2-1 [11.1 MB] Get:35 http://ftpmaster.internal/ubuntu mantic/universe amd64 d-shlibs all 0.104 [10.2 kB] Get:36 http://ftpmaster.internal/ubuntu mantic/main amd64 libdebhelper-perl all 13.11.4ubuntu3 [66.1 kB] Get:37 http://ftpmaster.internal/ubuntu mantic/main amd64 libtool all 2.4.7-7 [166 kB] Get:38 http://ftpmaster.internal/ubuntu mantic/main amd64 dh-autoreconf all 20 [16.1 kB] Get:39 http://ftpmaster.internal/ubuntu mantic/main amd64 libarchive-zip-perl all 1.68-1 [90.2 kB] Get:40 http://ftpmaster.internal/ubuntu mantic/main amd64 libsub-override-perl all 0.09-4 [8706 B] Get:41 http://ftpmaster.internal/ubuntu mantic/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] Get:42 http://ftpmaster.internal/ubuntu mantic/main amd64 dh-strip-nondeterminism all 1.13.1-1 [5362 B] Get:43 http://ftpmaster.internal/ubuntu mantic/main amd64 libdw1 amd64 0.189-4 [257 kB] Get:44 http://ftpmaster.internal/ubuntu mantic/main amd64 debugedit amd64 1:5.0-5 [46.1 kB] Get:45 http://ftpmaster.internal/ubuntu mantic/main amd64 dwz amd64 0.15-1 [112 kB] Get:46 http://ftpmaster.internal/ubuntu mantic/main amd64 gettext amd64 0.21-13 [866 kB] Get:47 http://ftpmaster.internal/ubuntu mantic/main amd64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:48 http://ftpmaster.internal/ubuntu mantic/main amd64 po-debconf all 1.0.21+nmu1 [233 kB] Get:49 http://ftpmaster.internal/ubuntu mantic/main amd64 debhelper all 13.11.4ubuntu3 [925 kB] Get:50 http://ftpmaster.internal/ubuntu mantic/universe amd64 libbpp-core4 amd64 2.4.1-9 [682 kB] Get:51 http://ftpmaster.internal/ubuntu mantic/universe amd64 libbpp-core-dev amd64 2.4.1-9 [1043 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 35.9 MB in 0s (135 MB/s) Selecting previously unselected package libelf1:amd64. 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Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libdw1:amd64 (0.189-4) ... Setting up gettext (0.21-13) ... Setting up libtool (2.4.7-7) ... Setting up libarchive13:amd64 (3.6.2-1ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libbpp-core-dev:amd64 (2.4.1-9) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.23.0-2) ... Setting up debugedit (1:5.0-5) ... Setting up libcurl4:amd64 (8.2.1-1ubuntu2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.11.2-3) ... 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 cmake (3.27.2-1) ... Setting up debhelper (13.11.4ubuntu3) ... 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Processing triggers for libc-bin (2.38-1ubuntu3) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-155-generic #172-Ubuntu SMP Fri Jul 7 16:10:02 UTC 2023 amd64 (x86_64) Toolchain package versions: binutils_2.41-4ubuntu1 dpkg-dev_1.21.22ubuntu1 g++-12_12.3.0-7ubuntu2 g++-13_13.2.0-2ubuntu1 gcc-12_12.3.0-7ubuntu2 gcc-13_13.2.0-2ubuntu1 libc6-dev_2.38-1ubuntu3 libstdc++-12-dev_12.3.0-7ubuntu2 libstdc++-13-dev_13.2.0-2ubuntu1 libstdc++6_13.2.0-2ubuntu1 linux-libc-dev_6.3.0-7.7 Package versions: adduser_3.137ubuntu1 advancecomp_2.5-1 apt_2.7.3 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-13 autotools-dev_20220109.1 base-files_13ubuntu1 base-passwd_3.6.1 bash_5.2.15-2ubuntu1 binutils_2.41-4ubuntu1 binutils-common_2.41-4ubuntu1 binutils-x86-64-linux-gnu_2.41-4ubuntu1 bsdextrautils_2.38.1-5ubuntu2 bsdutils_1:2.38.1-5ubuntu2 build-essential_12.10ubuntu1 bzip2_1.0.8-5build1 ca-certificates_20230311ubuntu1 cmake_3.27.2-1 cmake-data_3.27.2-1 coreutils_9.1-1ubuntu2 cpp_4:13.2.0-1ubuntu1 cpp-12_12.3.0-7ubuntu2 cpp-13_13.2.0-2ubuntu1 d-shlibs_0.104 dash_0.5.12-6ubuntu1 debconf_1.5.82 debhelper_13.11.4ubuntu3 debianutils_5.8-1 debugedit_1:5.0-5 dh-autoreconf_20 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.8-4 dpkg_1.21.22ubuntu1 dpkg-dev_1.21.22ubuntu1 dwz_0.15-1 e2fsprogs_1.47.0-2ubuntu1 fakeroot_1.32.1-1 file_1:5.44-3 findutils_4.9.0-5 g++_4:13.2.0-1ubuntu1 g++-12_12.3.0-7ubuntu2 g++-13_13.2.0-2ubuntu1 gcc_4:13.2.0-1ubuntu1 gcc-12_12.3.0-7ubuntu2 gcc-12-base_12.3.0-7ubuntu2 gcc-13_13.2.0-2ubuntu1 gcc-13-base_13.2.0-2ubuntu1 gettext_0.21-13 gettext-base_0.21-13 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-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libbpp-seq Binary: libbpp-seq-dev, libbpp-seq12 Architecture: any Version: 2.4.1-10 Maintainer: Debian Med Packaging Team Uploaders: Julien Dutheil , Andreas Tille Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/libbpp-seq Vcs-Git: https://salsa.debian.org/med-team/libbpp-seq.git Build-Depends: debhelper-compat (= 13), cmake, d-shlibs, libbpp-core-dev Package-List: libbpp-seq-dev deb libdevel optional arch=any libbpp-seq12 deb libs optional arch=any Checksums-Sha1: a79687bdf2ce4c5c2031cb5da8394a9420804f90 322620 libbpp-seq_2.4.1.orig.tar.gz e7f4afad355dc327ef3a55ef9cc77dcb077b8de1 28208 libbpp-seq_2.4.1-10.debian.tar.xz Checksums-Sha256: dbfcb04803e4b7f08f9f159da8a947c91906c3ca8b20683ac193f6dc524d4655 322620 libbpp-seq_2.4.1.orig.tar.gz a38c526879ef263d2c256193735dfaedefecebdfa3ecde418274c1fd491a19ab 28208 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SIGNATURE----- gpgv: Signature made Sun Aug 13 11:57:48 2023 UTC gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./libbpp-seq_2.4.1-10.dsc: no acceptable signature found dpkg-source: info: extracting libbpp-seq in /<> dpkg-source: info: unpacking libbpp-seq_2.4.1.orig.tar.gz dpkg-source: info: unpacking libbpp-seq_2.4.1-10.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying unforce-cxxflags.patch dpkg-source: info: applying spelling Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 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-26502251 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-DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu .. CMake Deprecation Warning at CMakeLists.txt:8 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The CXX compiler identification is GNU 13.2.0 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- bpp-core 4.1.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-core.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 -- includes: /usr/include -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- Configuring done (0.2s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /<>/obj-x86_64-linux-gnu dh_auto_build cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/<>/obj-x86_64-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-x86_64-linux-gnu/CMakeFiles /<>/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-x86_64-linux-gnu' make -f src/CMakeFiles/bpp-seq-static.dir/build.make src/CMakeFiles/bpp-seq-static.dir/depend make -f src/CMakeFiles/bpp-seq-shared.dir/build.make src/CMakeFiles/bpp-seq-shared.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/src /<>/obj-x86_64-linux-gnu/src/CMakeFiles/bpp-seq-static.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/src /<>/obj-x86_64-linux-gnu/src/CMakeFiles/bpp-seq-shared.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f src/CMakeFiles/bpp-seq-static.dir/build.make src/CMakeFiles/bpp-seq-static.dir/build make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f src/CMakeFiles/bpp-seq-shared.dir/build.make src/CMakeFiles/bpp-seq-shared.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' [ 0%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AbstractAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AbstractAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AbstractAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AbstractAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/AbstractAlphabet.cpp [ 0%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AbstractAlphabet.cpp.o [ 1%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AlphabetExceptions.cpp.o [ 1%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AlphabetTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AlphabetExceptions.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AlphabetExceptions.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AlphabetExceptions.cpp.o -c /<>/src/Bpp/Seq/Alphabet/AlphabetExceptions.cpp cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AbstractAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AbstractAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AbstractAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/AbstractAlphabet.cpp cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AlphabetTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AlphabetTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AlphabetTools.cpp.o -c /<>/src/Bpp/Seq/Alphabet/AlphabetTools.cpp In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/Alphabet/AlphabetTools.cpp:40: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 2%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/BinaryAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/BinaryAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/BinaryAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/BinaryAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/BinaryAlphabet.cpp [ 2%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp [ 3%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/CodonAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/CodonAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/CodonAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/CodonAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.cpp [ 4%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AlphabetExceptions.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AlphabetExceptions.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AlphabetExceptions.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AlphabetExceptions.cpp.o -c /<>/src/Bpp/Seq/Alphabet/AlphabetExceptions.cpp [ 5%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/DNA.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/DNA.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/DNA.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/DNA.cpp.o -c /<>/src/Bpp/Seq/Alphabet/DNA.cpp In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.cpp:40: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 5%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AlphabetTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AlphabetTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AlphabetTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AlphabetTools.cpp.o -c /<>/src/Bpp/Seq/Alphabet/AlphabetTools.cpp [ 5%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/DefaultAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/DefaultAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/DefaultAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/DefaultAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/DefaultAlphabet.cpp In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/Alphabet/AlphabetTools.cpp:40: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 6%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/IntegerAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/IntegerAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/IntegerAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/IntegerAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/IntegerAlphabet.cpp [ 6%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/LetterAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/LetterAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/LetterAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/LetterAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/LetterAlphabet.cpp [ 7%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/BinaryAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/BinaryAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/BinaryAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/BinaryAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/BinaryAlphabet.cpp [ 8%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/LexicalAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/LexicalAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/LexicalAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/LexicalAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/LexicalAlphabet.cpp [ 8%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/NumericAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/NumericAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/NumericAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/NumericAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/NumericAlphabet.cpp [ 9%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/ProteicAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/ProteicAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/ProteicAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/ProteicAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/ProteicAlphabet.cpp [ 9%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/RNA.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/RNA.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/RNA.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/RNA.cpp.o -c /<>/src/Bpp/Seq/Alphabet/RNA.cpp [ 9%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp [ 10%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/RNY.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/RNY.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/RNY.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/RNY.cpp.o -c /<>/src/Bpp/Seq/Alphabet/RNY.cpp [ 11%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/CodonAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/CodonAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/CodonAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/CodonAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.cpp In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/Alphabet/RNY.cpp:44: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.cpp:40: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 11%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/WordAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/WordAlphabet.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/WordAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/WordAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/WordAlphabet.cpp [ 12%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.cpp:41: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp:41: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 12%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/DNA.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/DNA.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/DNA.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/DNA.cpp.o -c /<>/src/Bpp/Seq/Alphabet/DNA.cpp [ 12%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp [ 13%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp In file included from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp:41: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 14%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.cpp In file included from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp:43: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 14%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp [ 15%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp [ 16%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/DefaultAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/DefaultAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/DefaultAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/DefaultAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/DefaultAlphabet.cpp [ 16%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/SimpleScore.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/SimpleScore.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/SimpleScore.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/AlphabetIndex/SimpleScore.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/SimpleScore.cpp In file included from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp:44: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp:46: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 16%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/IntegerAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/IntegerAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/IntegerAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/IntegerAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/IntegerAlphabet.cpp [ 17%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/App/SequenceApplicationTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/App/SequenceApplicationTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/App/SequenceApplicationTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/App/SequenceApplicationTools.cpp.o -c /<>/src/Bpp/Seq/App/SequenceApplicationTools.cpp In file included from /<>/src/Bpp/Seq/App/../GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/App/../GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/App/../GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/App/SequenceApplicationTools.h:45, from /<>/src/Bpp/Seq/App/SequenceApplicationTools.cpp:41: /<>/src/Bpp/Seq/App/../GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/App/../GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/App/../GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/App/../GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/App/../GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 17%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/CodonSiteTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/CodonSiteTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/CodonSiteTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/CodonSiteTools.cpp.o -c /<>/src/Bpp/Seq/CodonSiteTools.cpp [ 18%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/LetterAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/LetterAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/LetterAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/LetterAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/LetterAlphabet.cpp In file included from /<>/src/Bpp/Seq/SymbolListTools.h:43, from /<>/src/Bpp/Seq/CodonSiteTools.h:43, from /<>/src/Bpp/Seq/CodonSiteTools.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 18%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/LexicalAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/LexicalAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/LexicalAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/LexicalAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/LexicalAlphabet.cpp [ 19%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/NumericAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/NumericAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/NumericAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/NumericAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/NumericAlphabet.cpp [ 20%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/ProteicAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/ProteicAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/ProteicAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/ProteicAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/ProteicAlphabet.cpp [ 20%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/RNA.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/RNA.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/RNA.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/RNA.cpp.o -c /<>/src/Bpp/Seq/Alphabet/RNA.cpp [ 21%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/RNY.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/RNY.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/RNY.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/RNY.cpp.o -c /<>/src/Bpp/Seq/Alphabet/RNY.cpp In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/Alphabet/RNY.cpp:44: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 22%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/AbstractSequenceContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/AbstractSequenceContainer.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/AbstractSequenceContainer.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/AbstractSequenceContainer.cpp.o -c /<>/src/Bpp/Seq/Container/AbstractSequenceContainer.cpp In file included from /<>/src/Bpp/Seq/Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Container/AbstractSequenceContainer.h:44, from /<>/src/Bpp/Seq/Container/AbstractSequenceContainer.cpp:41: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 22%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/AlignedSequenceContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/AlignedSequenceContainer.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/AlignedSequenceContainer.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/AlignedSequenceContainer.cpp.o -c /<>/src/Bpp/Seq/Container/AlignedSequenceContainer.cpp [ 22%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/WordAlphabet.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/WordAlphabet.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/WordAlphabet.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/WordAlphabet.cpp.o -c /<>/src/Bpp/Seq/Alphabet/WordAlphabet.cpp In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/AlignedSequenceContainer.h:44, from /<>/src/Bpp/Seq/Container/AlignedSequenceContainer.cpp:41: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 23%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.cpp:41: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 23%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp In file included from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/AlphabetIndex/AAIndex1Entry.cpp:41: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/AlphabetIndex/AAIndex2Entry.cpp:41: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 24%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp [ 25%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp.o -c /<>/src/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp [ 25%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.cpp [ 26%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/CompressedVectorSiteContainer.h:43, from /<>/src/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp:40: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/AlphabetIndex/BLOSUM50.cpp:43: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.cpp:44: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 26%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp [ 27%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/SimpleScore.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/SimpleScore.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/SimpleScore.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/AlphabetIndex/SimpleScore.cpp.o -c /<>/src/Bpp/Seq/AlphabetIndex/SimpleScore.cpp In file included from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.cpp:46: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/AlphabetIndex/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 28%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/App/SequenceApplicationTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/App/SequenceApplicationTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/App/SequenceApplicationTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/App/SequenceApplicationTools.cpp.o -c /<>/src/Bpp/Seq/App/SequenceApplicationTools.cpp In file included from /<>/src/Bpp/Seq/App/../GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/App/../GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/App/../GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/App/SequenceApplicationTools.h:45, from /<>/src/Bpp/Seq/App/SequenceApplicationTools.cpp:41: /<>/src/Bpp/Seq/App/../GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/App/../GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/App/../GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 28%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/CodonSiteTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/CodonSiteTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/CodonSiteTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/CodonSiteTools.cpp.o -c /<>/src/Bpp/Seq/CodonSiteTools.cpp /<>/src/Bpp/Seq/App/../GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/App/../GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/SymbolListTools.h:43, from /<>/src/Bpp/Seq/CodonSiteTools.h:43, from /<>/src/Bpp/Seq/CodonSiteTools.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 28%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/MapSequenceContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/MapSequenceContainer.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/MapSequenceContainer.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/MapSequenceContainer.cpp.o -c /<>/src/Bpp/Seq/Container/MapSequenceContainer.cpp [ 29%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/AbstractSequenceContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/AbstractSequenceContainer.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/AbstractSequenceContainer.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/AbstractSequenceContainer.cpp.o -c /<>/src/Bpp/Seq/Container/AbstractSequenceContainer.cpp In file included from /<>/src/Bpp/Seq/Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Container/MapSequenceContainer.h:46, from /<>/src/Bpp/Seq/Container/MapSequenceContainer.cpp:42: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Container/AbstractSequenceContainer.h:44, from /<>/src/Bpp/Seq/Container/AbstractSequenceContainer.cpp:41: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 29%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/AlignedSequenceContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/AlignedSequenceContainer.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/AlignedSequenceContainer.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/AlignedSequenceContainer.cpp.o -c /<>/src/Bpp/Seq/Container/AlignedSequenceContainer.cpp In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/AlignedSequenceContainer.h:44, from /<>/src/Bpp/Seq/Container/AlignedSequenceContainer.cpp:41: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 30%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SequenceContainerIterator.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SequenceContainerIterator.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SequenceContainerIterator.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SequenceContainerIterator.cpp.o -c /<>/src/Bpp/Seq/Container/SequenceContainerIterator.cpp [ 31%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp.o -c /<>/src/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp In file included from /<>/src/Bpp/Seq/Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Container/SequenceContainerIterator.h:43, from /<>/src/Bpp/Seq/Container/SequenceContainerIterator.cpp:40: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/CompressedVectorSiteContainer.h:43, from /<>/src/Bpp/Seq/Container/CompressedVectorSiteContainer.cpp:40: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 31%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/MapSequenceContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/MapSequenceContainer.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/MapSequenceContainer.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/MapSequenceContainer.cpp.o -c /<>/src/Bpp/Seq/Container/MapSequenceContainer.cpp [ 32%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SequenceContainerTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SequenceContainerTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SequenceContainerTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SequenceContainerTools.cpp.o -c /<>/src/Bpp/Seq/Container/SequenceContainerTools.cpp In file included from /<>/src/Bpp/Seq/Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Container/MapSequenceContainer.h:46, from /<>/src/Bpp/Seq/Container/MapSequenceContainer.cpp:42: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Container/SequenceContainer.h:45, from /<>/src/Bpp/Seq/Container/SequenceContainerTools.h:50, from /<>/src/Bpp/Seq/Container/SequenceContainerTools.cpp:40: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 33%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SequenceContainerIterator.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SequenceContainerIterator.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SequenceContainerIterator.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SequenceContainerIterator.cpp.o -c /<>/src/Bpp/Seq/Container/SequenceContainerIterator.cpp In file included from /<>/src/Bpp/Seq/Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Container/SequenceContainerIterator.h:43, from /<>/src/Bpp/Seq/Container/SequenceContainerIterator.cpp:40: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 33%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerExceptions.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerExceptions.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerExceptions.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerExceptions.cpp.o -c /<>/src/Bpp/Seq/Container/SiteContainerExceptions.cpp [ 34%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerIterator.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerIterator.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerIterator.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerIterator.cpp.o -c /<>/src/Bpp/Seq/Container/SiteContainerIterator.cpp [ 34%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SequenceContainerTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SequenceContainerTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SequenceContainerTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SequenceContainerTools.cpp.o -c /<>/src/Bpp/Seq/Container/SequenceContainerTools.cpp [ 35%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerExceptions.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerExceptions.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerExceptions.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerExceptions.cpp.o -c /<>/src/Bpp/Seq/Container/SiteContainerExceptions.cpp In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/SiteContainerIterator.h:43, from /<>/src/Bpp/Seq/Container/SiteContainerIterator.cpp:40: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Container/SequenceContainer.h:45, from /<>/src/Bpp/Seq/Container/SequenceContainerTools.h:50, from /<>/src/Bpp/Seq/Container/SequenceContainerTools.cpp:40: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 35%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerIterator.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerIterator.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerIterator.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerIterator.cpp.o -c /<>/src/Bpp/Seq/Container/SiteContainerIterator.cpp In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/SiteContainerIterator.h:43, from /<>/src/Bpp/Seq/Container/SiteContainerIterator.cpp:40: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 35%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/SiteContainerTools.cpp.o -c /<>/src/Bpp/Seq/Container/SiteContainerTools.cpp [ 36%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/SiteContainerTools.cpp.o -c /<>/src/Bpp/Seq/Container/SiteContainerTools.cpp [ 37%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/VectorSequenceContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/VectorSequenceContainer.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/VectorSequenceContainer.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/VectorSequenceContainer.cpp.o -c /<>/src/Bpp/Seq/Container/VectorSequenceContainer.cpp In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/SiteContainer.h:43, from /<>/src/Bpp/Seq/Container/SiteContainerTools.h:43, from /<>/src/Bpp/Seq/Container/SiteContainerTools.cpp:41: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/SiteContainer.h:43, from /<>/src/Bpp/Seq/Container/SiteContainerTools.h:43, from /<>/src/Bpp/Seq/Container/SiteContainerTools.cpp:41: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Container/VectorSequenceContainer.h:44, from /<>/src/Bpp/Seq/Container/VectorSequenceContainer.cpp:41: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 37%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/VectorSiteContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/VectorSiteContainer.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/VectorSiteContainer.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Container/VectorSiteContainer.cpp.o -c /<>/src/Bpp/Seq/Container/VectorSiteContainer.cpp In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/VectorSiteContainer.h:43, from /<>/src/Bpp/Seq/Container/VectorSiteContainer.cpp:40: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 38%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/DNAToRNA.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/DNAToRNA.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/DNAToRNA.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/DNAToRNA.cpp.o -c /<>/src/Bpp/Seq/DNAToRNA.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/Transliterator.h:44, from /<>/src/Bpp/Seq/DNAToRNA.h:43, from /<>/src/Bpp/Seq/DNAToRNA.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 38%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/DistanceMatrix.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/DistanceMatrix.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/DistanceMatrix.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/DistanceMatrix.cpp.o -c /<>/src/Bpp/Seq/DistanceMatrix.cpp [ 39%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 39%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp [ 40%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/VectorSequenceContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/VectorSequenceContainer.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/VectorSequenceContainer.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/VectorSequenceContainer.cpp.o -c /<>/src/Bpp/Seq/Container/VectorSequenceContainer.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp:39: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Container/VectorSequenceContainer.h:44, from /<>/src/Bpp/Seq/Container/VectorSequenceContainer.cpp:41: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 41%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/GeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/GeneticCode.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/GeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/GeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/GeneticCode.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 41%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/VectorSiteContainer.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/VectorSiteContainer.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/VectorSiteContainer.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Container/VectorSiteContainer.cpp.o -c /<>/src/Bpp/Seq/Container/VectorSiteContainer.cpp [ 41%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/VectorSiteContainer.h:43, from /<>/src/Bpp/Seq/Container/VectorSiteContainer.cpp:40: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.h:44, from /<>/src/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 42%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.h:44, from /<>/src/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 42%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/StandardGeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 43%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 44%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.h:44, from /<>/src/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 44%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp.o -c /<>/src/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/BppOAlignmentReaderFormat.h:43, from /<>/src/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 45%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/DNAToRNA.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/DNAToRNA.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/DNAToRNA.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/DNAToRNA.cpp.o -c /<>/src/Bpp/Seq/DNAToRNA.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/Transliterator.h:44, from /<>/src/Bpp/Seq/DNAToRNA.h:43, from /<>/src/Bpp/Seq/DNAToRNA.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 46%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp.o -c /<>/src/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/BppOAlignmentWriterFormat.h:43, from /<>/src/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 46%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp.o -c /<>/src/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp [ 46%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/DistanceMatrix.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/DistanceMatrix.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/DistanceMatrix.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/DistanceMatrix.cpp.o -c /<>/src/Bpp/Seq/DistanceMatrix.cpp [ 47%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp.o -c /<>/src/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp In file included from /<>/src/Bpp/Seq/Io/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Io/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Io/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp:41: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Io/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Io/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp:42: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 48%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 48%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp.o -c /<>/src/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceReaderFormat.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 49%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp.o -c /<>/src/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 49%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp.o -c /<>/src/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceWriterFormat.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 49%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp [ 50%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Clustal.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Clustal.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Clustal.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Clustal.cpp.o -c /<>/src/Bpp/Seq/Io/Clustal.cpp [ 50%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Dcse.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Dcse.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Dcse.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Dcse.cpp.o -c /<>/src/Bpp/Seq/Io/Dcse.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.cpp:39: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Container/../Site.h:43, from /<>/src/Bpp/Seq/Io/../Container/AlignedSequenceContainer.h:44, from /<>/src/Bpp/Seq/Io/AbstractIAlignment.h:43, from /<>/src/Bpp/Seq/Io/Clustal.h:43, from /<>/src/Bpp/Seq/Io/Clustal.cpp:40: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Container/../Site.h:43, from /<>/src/Bpp/Seq/Io/../Container/AlignedSequenceContainer.h:44, from /<>/src/Bpp/Seq/Io/AbstractIAlignment.h:43, from /<>/src/Bpp/Seq/Io/Dcse.h:43, from /<>/src/Bpp/Seq/Io/Dcse.cpp:40: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 51%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Fasta.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Fasta.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Fasta.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Fasta.cpp.o -c /<>/src/Bpp/Seq/Io/Fasta.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/AbstractISequence.h:43, from /<>/src/Bpp/Seq/Io/Fasta.h:45, from /<>/src/Bpp/Seq/Io/Fasta.cpp:42: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 51%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/GenBank.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/GenBank.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/GenBank.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/GenBank.cpp.o -c /<>/src/Bpp/Seq/Io/GenBank.cpp [ 52%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/IoSequenceFactory.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/IoSequenceFactory.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/IoSequenceFactory.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/IoSequenceFactory.cpp.o -c /<>/src/Bpp/Seq/Io/IoSequenceFactory.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/AbstractISequence.h:43, from /<>/src/Bpp/Seq/Io/GenBank.h:43, from /<>/src/Bpp/Seq/Io/GenBank.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 53%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/GeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/GeneticCode.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/GeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/GeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/GeneticCode.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 54%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Mase.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Mase.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Mase.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Mase.cpp.o -c /<>/src/Bpp/Seq/Io/Mase.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/AbstractISequence.h:43, from /<>/src/Bpp/Seq/Io/Mase.h:44, from /<>/src/Bpp/Seq/Io/Mase.cpp:41: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 54%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/MaseTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/MaseTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/MaseTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/MaseTools.cpp.o -c /<>/src/Bpp/Seq/Io/MaseTools.cpp [ 55%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/NexusIoSequence.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/NexusIoSequence.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/NexusIoSequence.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/NexusIoSequence.cpp.o -c /<>/src/Bpp/Seq/Io/NexusIoSequence.cpp In file included from /<>/src/Bpp/Seq/Io/../Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/../Container/SequenceContainer.h:45, from /<>/src/Bpp/Seq/Io/MaseTools.h:43, from /<>/src/Bpp/Seq/Io/MaseTools.cpp:40: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Container/../Site.h:43, from /<>/src/Bpp/Seq/Io/../Container/AlignedSequenceContainer.h:44, from /<>/src/Bpp/Seq/Io/AbstractIAlignment.h:43, from /<>/src/Bpp/Seq/Io/NexusIoSequence.h:43, from /<>/src/Bpp/Seq/Io/NexusIoSequence.cpp:40: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 56%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.h:44, from /<>/src/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 56%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/NexusTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/NexusTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/NexusTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/NexusTools.cpp.o -c /<>/src/Bpp/Seq/Io/NexusTools.cpp [ 57%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/PhredPhd.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/PhredPhd.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/PhredPhd.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/PhredPhd.cpp.o -c /<>/src/Bpp/Seq/Io/PhredPhd.cpp [ 57%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/PhredPoly.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/PhredPoly.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/PhredPoly.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/PhredPoly.cpp.o -c /<>/src/Bpp/Seq/Io/PhredPoly.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequenceStream.h:44, from /<>/src/Bpp/Seq/Io/PhredPhd.h:43, from /<>/src/Bpp/Seq/Io/PhredPhd.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequenceStream.h:44, from /<>/src/Bpp/Seq/Io/PhredPoly.h:43, from /<>/src/Bpp/Seq/Io/PhredPoly.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 57%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp [ 58%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Phylip.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Phylip.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Phylip.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Phylip.cpp.o -c /<>/src/Bpp/Seq/Io/Phylip.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.h:44, from /<>/src/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Container/../Site.h:43, from /<>/src/Bpp/Seq/Io/../Container/AlignedSequenceContainer.h:44, from /<>/src/Bpp/Seq/Io/AbstractIAlignment.h:43, from /<>/src/Bpp/Seq/Io/Phylip.h:43, from /<>/src/Bpp/Seq/Io/Phylip.cpp:40: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 58%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Stockholm.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Stockholm.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Stockholm.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Stockholm.cpp.o -c /<>/src/Bpp/Seq/Io/Stockholm.cpp [ 59%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/StreamSequenceIterator.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/StreamSequenceIterator.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/StreamSequenceIterator.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/StreamSequenceIterator.cpp.o -c /<>/src/Bpp/Seq/Io/StreamSequenceIterator.cpp In file included from /<>/src/Bpp/Seq/Io/../Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/../Container/SequenceContainer.h:45, from /<>/src/Bpp/Seq/Io/OSequence.h:44, from /<>/src/Bpp/Seq/Io/AbstractOAlignment.h:43, from /<>/src/Bpp/Seq/Io/Stockholm.h:43, from /<>/src/Bpp/Seq/Io/Stockholm.cpp:42: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/../SequenceIterator.h:43, from /<>/src/Bpp/Seq/Io/StreamSequenceIterator.h:43, from /<>/src/Bpp/Seq/Io/StreamSequenceIterator.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 59%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/NucleicAcidsReplication.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/NucleicAcidsReplication.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/NucleicAcidsReplication.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/NucleicAcidsReplication.cpp.o -c /<>/src/Bpp/Seq/NucleicAcidsReplication.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/Transliterator.h:44, from /<>/src/Bpp/Seq/NucleicAcidsReplication.h:43, from /<>/src/Bpp/Seq/NucleicAcidsReplication.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 60%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Sequence.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Sequence.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Sequence.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Sequence.cpp.o -c /<>/src/Bpp/Seq/Sequence.cpp [ 61%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp [ 62%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceExceptions.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceExceptions.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceExceptions.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceExceptions.cpp.o -c /<>/src/Bpp/Seq/SequenceExceptions.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/Sequence.cpp:41: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/StandardGeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/StandardGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 62%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequencePositionIterators.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequencePositionIterators.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequencePositionIterators.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequencePositionIterators.cpp.o -c /<>/src/Bpp/Seq/SequencePositionIterators.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/SequenceExceptions.cpp:41: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceTools.cpp.o -c /<>/src/Bpp/Seq/SequenceTools.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/SequencePositionIterators.h:46, from /<>/src/Bpp/Seq/SequencePositionIterators.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWalker.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWalker.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWalker.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWalker.cpp.o -c /<>/src/Bpp/Seq/SequenceWalker.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/SequenceTools.h:49, from /<>/src/Bpp/Seq/SequenceTools.cpp:42: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/SequenceWalker.h:43, from /<>/src/Bpp/Seq/SequenceWalker.cpp:43: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 64%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithAnnotation.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithAnnotation.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithAnnotation.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithAnnotation.cpp.o -c /<>/src/Bpp/Seq/SequenceWithAnnotation.cpp [ 64%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithAnnotationTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithAnnotationTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithAnnotationTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithAnnotationTools.cpp.o -c /<>/src/Bpp/Seq/SequenceWithAnnotationTools.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/SequenceWithAnnotation.h:43, from /<>/src/Bpp/Seq/SequenceWithAnnotation.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/SequenceTools.h:49, from /<>/src/Bpp/Seq/SequenceWithAnnotationTools.h:43, from /<>/src/Bpp/Seq/SequenceWithAnnotationTools.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 64%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 65%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithQuality.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithQuality.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithQuality.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithQuality.cpp.o -c /<>/src/Bpp/Seq/SequenceWithQuality.cpp [ 65%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithQualityTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithQualityTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithQualityTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithQualityTools.cpp.o -c /<>/src/Bpp/Seq/SequenceWithQualityTools.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/SequenceWithAnnotation.h:43, from /<>/src/Bpp/Seq/SequenceWithQuality.h:45, from /<>/src/Bpp/Seq/SequenceWithQuality.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/SequenceTools.h:49, from /<>/src/Bpp/Seq/SequenceWithQualityTools.h:44, from /<>/src/Bpp/Seq/SequenceWithQualityTools.cpp:41: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 66%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Site.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Site.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Site.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Site.cpp.o -c /<>/src/Bpp/Seq/Site.cpp [ 67%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp.o -c /<>/src/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp In file included from /<>/src/Bpp/Seq/Site.h:43, from /<>/src/Bpp/Seq/Site.cpp:41: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 67%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SiteExceptions.cpp.o In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.h:44, from /<>/src/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SiteExceptions.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SiteExceptions.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SiteExceptions.cpp.o -c /<>/src/Bpp/Seq/SiteExceptions.cpp /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 68%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SiteTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SiteTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SiteTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SiteTools.cpp.o -c /<>/src/Bpp/Seq/SiteTools.cpp In file included from /<>/src/Bpp/Seq/Site.h:43, from /<>/src/Bpp/Seq/SiteExceptions.cpp:39: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/SymbolListTools.h:43, from /<>/src/Bpp/Seq/SiteTools.h:44, from /<>/src/Bpp/Seq/SiteTools.cpp:41: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 69%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/StringSequenceTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/StringSequenceTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/StringSequenceTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/StringSequenceTools.cpp.o -c /<>/src/Bpp/Seq/StringSequenceTools.cpp In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/StringSequenceTools.cpp:42: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 69%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SymbolList.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SymbolList.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SymbolList.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SymbolList.cpp.o -c /<>/src/Bpp/Seq/SymbolList.cpp [ 69%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp.o -c /<>/src/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp In file included from /<>/src/Bpp/Seq/SymbolList.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/BppOAlignmentReaderFormat.h:43, from /<>/src/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 70%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SymbolListTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SymbolListTools.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SymbolListTools.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SymbolListTools.cpp.o -c /<>/src/Bpp/Seq/SymbolListTools.cpp [ 70%] Building CXX object src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Transliterator.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_seq_shared_EXPORTS -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT src/CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Transliterator.cpp.o -MF CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Transliterator.cpp.o.d -o CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Transliterator.cpp.o -c /<>/src/Bpp/Seq/Transliterator.cpp In file included from /<>/src/Bpp/Seq/SymbolListTools.h:43, from /<>/src/Bpp/Seq/SymbolListTools.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/Transliterator.h:44, from /<>/src/Bpp/Seq/Transliterator.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 71%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp.o -c /<>/src/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp [ 71%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp.o -c /<>/src/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/BppOAlignmentWriterFormat.h:43, from /<>/src/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 72%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp.o -c /<>/src/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp In file included from /<>/src/Bpp/Seq/Io/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Io/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Io/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp:41: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 73%] Linking CXX shared library libbpp-seq.so cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-seq-shared.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libbpp-seq.so.12 -o libbpp-seq.so.12.0.0 "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AbstractAlphabet.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AlphabetExceptions.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/AlphabetTools.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/BinaryAlphabet.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/CaseMaskedAlphabet.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/CodonAlphabet.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Alphabet/DNA.cpp.o" 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"CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlignmentReaderFormat.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlignmentWriterFormat.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlphabetIndex1Format.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Clustal.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Dcse.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Fasta.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/GenBank.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/IoSequenceFactory.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Mase.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/MaseTools.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/NexusIoSequence.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/NexusTools.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/PhredPhd.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/PhredPoly.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Phylip.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/Stockholm.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Io/StreamSequenceIterator.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/NucleicAcidsReplication.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Sequence.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceExceptions.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequencePositionIterators.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceTools.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWalker.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithAnnotation.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithAnnotationTools.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithQuality.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SequenceWithQualityTools.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Site.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SiteExceptions.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SiteTools.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/StringSequenceTools.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SymbolList.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/SymbolListTools.cpp.o" "CMakeFiles/bpp-seq-shared.dir/Bpp/Seq/Transliterator.cpp.o" /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 In file included from /<>/src/Bpp/Seq/Io/../Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/../Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Io/../Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Io/../Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/Io/BppOAlphabetIndex2Format.cpp:42: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library libbpp-seq.so.12.0.0 libbpp-seq.so.12 libbpp-seq.so make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [ 73%] Built target bpp-seq-shared [ 73%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp.o -c /<>/src/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceReaderFormat.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceReaderFormat.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 74%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp.o -c /<>/src/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 75%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp.o -c /<>/src/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp [ 75%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Clustal.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Clustal.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Clustal.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Clustal.cpp.o -c /<>/src/Bpp/Seq/Io/Clustal.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceWriterFormat.h:43, from /<>/src/Bpp/Seq/Io/BppOSequenceWriterFormat.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 76%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Dcse.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Dcse.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Dcse.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Dcse.cpp.o -c /<>/src/Bpp/Seq/Io/Dcse.cpp In file included from /<>/src/Bpp/Seq/Io/../Container/../Site.h:43, from /<>/src/Bpp/Seq/Io/../Container/AlignedSequenceContainer.h:44, from /<>/src/Bpp/Seq/Io/AbstractIAlignment.h:43, from /<>/src/Bpp/Seq/Io/Clustal.h:43, from /<>/src/Bpp/Seq/Io/Clustal.cpp:40: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 76%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Fasta.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Fasta.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Fasta.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Fasta.cpp.o -c /<>/src/Bpp/Seq/Io/Fasta.cpp In file included from /<>/src/Bpp/Seq/Io/../Container/../Site.h:43, from /<>/src/Bpp/Seq/Io/../Container/AlignedSequenceContainer.h:44, from /<>/src/Bpp/Seq/Io/AbstractIAlignment.h:43, from /<>/src/Bpp/Seq/Io/Dcse.h:43, from /<>/src/Bpp/Seq/Io/Dcse.cpp:40: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/AbstractISequence.h:43, from /<>/src/Bpp/Seq/Io/Fasta.h:45, from /<>/src/Bpp/Seq/Io/Fasta.cpp:42: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 77%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/GenBank.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/GenBank.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/GenBank.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/GenBank.cpp.o -c /<>/src/Bpp/Seq/Io/GenBank.cpp [ 77%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/IoSequenceFactory.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/IoSequenceFactory.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/IoSequenceFactory.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/IoSequenceFactory.cpp.o -c /<>/src/Bpp/Seq/Io/IoSequenceFactory.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/AbstractISequence.h:43, from /<>/src/Bpp/Seq/Io/GenBank.h:43, from /<>/src/Bpp/Seq/Io/GenBank.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 78%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Mase.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Mase.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Mase.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Mase.cpp.o -c /<>/src/Bpp/Seq/Io/Mase.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.h:43, from /<>/src/Bpp/Seq/Io/IoSequenceFactory.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/AbstractISequence.h:43, from /<>/src/Bpp/Seq/Io/Mase.h:44, from /<>/src/Bpp/Seq/Io/Mase.cpp:41: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 78%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/MaseTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/MaseTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/MaseTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/MaseTools.cpp.o -c /<>/src/Bpp/Seq/Io/MaseTools.cpp [ 79%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/NexusIoSequence.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/NexusIoSequence.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/NexusIoSequence.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/NexusIoSequence.cpp.o -c /<>/src/Bpp/Seq/Io/NexusIoSequence.cpp In file included from /<>/src/Bpp/Seq/Io/../Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/../Container/SequenceContainer.h:45, from /<>/src/Bpp/Seq/Io/MaseTools.h:43, from /<>/src/Bpp/Seq/Io/MaseTools.cpp:40: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 79%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/NexusTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/NexusTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/NexusTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/NexusTools.cpp.o -c /<>/src/Bpp/Seq/Io/NexusTools.cpp In file included from /<>/src/Bpp/Seq/Io/../Container/../Site.h:43, from /<>/src/Bpp/Seq/Io/../Container/AlignedSequenceContainer.h:44, from /<>/src/Bpp/Seq/Io/AbstractIAlignment.h:43, from /<>/src/Bpp/Seq/Io/NexusIoSequence.h:43, from /<>/src/Bpp/Seq/Io/NexusIoSequence.cpp:40: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 80%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/PhredPhd.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/PhredPhd.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/PhredPhd.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/PhredPhd.cpp.o -c /<>/src/Bpp/Seq/Io/PhredPhd.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequenceStream.h:44, from /<>/src/Bpp/Seq/Io/PhredPhd.h:43, from /<>/src/Bpp/Seq/Io/PhredPhd.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 80%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/PhredPoly.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/PhredPoly.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/PhredPoly.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/PhredPoly.cpp.o -c /<>/src/Bpp/Seq/Io/PhredPoly.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequenceStream.h:44, from /<>/src/Bpp/Seq/Io/PhredPoly.h:43, from /<>/src/Bpp/Seq/Io/PhredPoly.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 81%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Phylip.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Phylip.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Phylip.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Phylip.cpp.o -c /<>/src/Bpp/Seq/Io/Phylip.cpp [ 82%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Stockholm.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Stockholm.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Stockholm.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/Stockholm.cpp.o -c /<>/src/Bpp/Seq/Io/Stockholm.cpp In file included from /<>/src/Bpp/Seq/Io/../Container/../Site.h:43, from /<>/src/Bpp/Seq/Io/../Container/AlignedSequenceContainer.h:44, from /<>/src/Bpp/Seq/Io/AbstractIAlignment.h:43, from /<>/src/Bpp/Seq/Io/Phylip.h:43, from /<>/src/Bpp/Seq/Io/Phylip.cpp:40: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 82%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/StreamSequenceIterator.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/StreamSequenceIterator.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/StreamSequenceIterator.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Io/StreamSequenceIterator.cpp.o -c /<>/src/Bpp/Seq/Io/StreamSequenceIterator.cpp In file included from /<>/src/Bpp/Seq/Io/../Container/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/../Container/SequenceContainer.h:45, from /<>/src/Bpp/Seq/Io/OSequence.h:44, from /<>/src/Bpp/Seq/Io/AbstractOAlignment.h:43, from /<>/src/Bpp/Seq/Io/Stockholm.h:43, from /<>/src/Bpp/Seq/Io/Stockholm.cpp:42: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 83%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/NucleicAcidsReplication.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/NucleicAcidsReplication.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/NucleicAcidsReplication.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/NucleicAcidsReplication.cpp.o -c /<>/src/Bpp/Seq/NucleicAcidsReplication.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/../SequenceIterator.h:43, from /<>/src/Bpp/Seq/Io/StreamSequenceIterator.h:43, from /<>/src/Bpp/Seq/Io/StreamSequenceIterator.cpp:40: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/Transliterator.h:44, from /<>/src/Bpp/Seq/NucleicAcidsReplication.h:43, from /<>/src/Bpp/Seq/NucleicAcidsReplication.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 83%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Sequence.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Sequence.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Sequence.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Sequence.cpp.o -c /<>/src/Bpp/Seq/Sequence.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/Sequence.cpp:41: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 84%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceExceptions.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceExceptions.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceExceptions.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceExceptions.cpp.o -c /<>/src/Bpp/Seq/SequenceExceptions.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/SequenceExceptions.cpp:41: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 84%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequencePositionIterators.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequencePositionIterators.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequencePositionIterators.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequencePositionIterators.cpp.o -c /<>/src/Bpp/Seq/SequencePositionIterators.cpp [ 85%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceTools.cpp.o -c /<>/src/Bpp/Seq/SequenceTools.cpp [ 85%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWalker.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWalker.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWalker.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWalker.cpp.o -c /<>/src/Bpp/Seq/SequenceWalker.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/SequencePositionIterators.h:46, from /<>/src/Bpp/Seq/SequencePositionIterators.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/SequenceWalker.h:43, from /<>/src/Bpp/Seq/SequenceWalker.cpp:43: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 86%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithAnnotation.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithAnnotation.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithAnnotation.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithAnnotation.cpp.o -c /<>/src/Bpp/Seq/SequenceWithAnnotation.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/SequenceTools.h:49, from /<>/src/Bpp/Seq/SequenceTools.cpp:42: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 86%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithAnnotationTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithAnnotationTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithAnnotationTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithAnnotationTools.cpp.o -c /<>/src/Bpp/Seq/SequenceWithAnnotationTools.cpp [ 87%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithQuality.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithQuality.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithQuality.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithQuality.cpp.o -c /<>/src/Bpp/Seq/SequenceWithQuality.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/SequenceWithAnnotation.h:43, from /<>/src/Bpp/Seq/SequenceWithAnnotation.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/SequenceTools.h:49, from /<>/src/Bpp/Seq/SequenceWithAnnotationTools.h:43, from /<>/src/Bpp/Seq/SequenceWithAnnotationTools.cpp:40: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/SequenceWithAnnotation.h:43, from /<>/src/Bpp/Seq/SequenceWithQuality.h:45, from /<>/src/Bpp/Seq/SequenceWithQuality.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 88%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithQualityTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithQualityTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithQualityTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SequenceWithQualityTools.cpp.o -c /<>/src/Bpp/Seq/SequenceWithQualityTools.cpp [ 88%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Site.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Site.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Site.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Site.cpp.o -c /<>/src/Bpp/Seq/Site.cpp In file included from /<>/src/Bpp/Seq/GeneticCode/../Sequence.h:44, from /<>/src/Bpp/Seq/GeneticCode/../Transliterator.h:44, from /<>/src/Bpp/Seq/GeneticCode/GeneticCode.h:43, from /<>/src/Bpp/Seq/SequenceTools.h:49, from /<>/src/Bpp/Seq/SequenceWithQualityTools.h:44, from /<>/src/Bpp/Seq/SequenceWithQualityTools.cpp:41: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/GeneticCode/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Site.h:43, from /<>/src/Bpp/Seq/Site.cpp:41: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 89%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SiteExceptions.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SiteExceptions.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SiteExceptions.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SiteExceptions.cpp.o -c /<>/src/Bpp/Seq/SiteExceptions.cpp [ 89%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SiteTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SiteTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SiteTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SiteTools.cpp.o -c /<>/src/Bpp/Seq/SiteTools.cpp [ 90%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/StringSequenceTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/StringSequenceTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/StringSequenceTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/StringSequenceTools.cpp.o -c /<>/src/Bpp/Seq/StringSequenceTools.cpp In file included from /<>/src/Bpp/Seq/Site.h:43, from /<>/src/Bpp/Seq/SiteExceptions.cpp:39: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 90%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SymbolList.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SymbolList.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SymbolList.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SymbolList.cpp.o -c /<>/src/Bpp/Seq/SymbolList.cpp In file included from /<>/src/Bpp/Seq/SymbolListTools.h:43, from /<>/src/Bpp/Seq/SiteTools.h:44, from /<>/src/Bpp/Seq/SiteTools.cpp:41: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Alphabet/AlphabetTools.h:47, from /<>/src/Bpp/Seq/StringSequenceTools.cpp:42: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/SymbolList.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 91%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SymbolListTools.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SymbolListTools.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SymbolListTools.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/SymbolListTools.cpp.o -c /<>/src/Bpp/Seq/SymbolListTools.cpp [ 91%] Building CXX object src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Transliterator.cpp.o cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Transliterator.cpp.o -MF CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Transliterator.cpp.o.d -o CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Transliterator.cpp.o -c /<>/src/Bpp/Seq/Transliterator.cpp make -f test/CMakeFiles/test_alignment_scores.dir/build.make test/CMakeFiles/test_alignment_scores.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/test /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/test /<>/obj-x86_64-linux-gnu/test/CMakeFiles/test_alignment_scores.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f test/CMakeFiles/test_alignment_scores.dir/build.make test/CMakeFiles/test_alignment_scores.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' [ 91%] Building CXX object test/CMakeFiles/test_alignment_scores.dir/test_alignment_scores.cpp.o cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -MD -MT test/CMakeFiles/test_alignment_scores.dir/test_alignment_scores.cpp.o -MF CMakeFiles/test_alignment_scores.dir/test_alignment_scores.cpp.o.d -o CMakeFiles/test_alignment_scores.dir/test_alignment_scores.cpp.o -c /<>/test/test_alignment_scores.cpp In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/src/Bpp/Seq/Transliterator.h:44, from /<>/src/Bpp/Seq/Transliterator.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/SymbolListTools.h:43, from /<>/src/Bpp/Seq/SymbolListTools.cpp:40: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ make -f test/CMakeFiles/test_alphabets.dir/build.make test/CMakeFiles/test_alphabets.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/test /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/test /<>/obj-x86_64-linux-gnu/test/CMakeFiles/test_alphabets.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f test/CMakeFiles/test_alphabets.dir/build.make test/CMakeFiles/test_alphabets.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' [ 92%] Building CXX object test/CMakeFiles/test_alphabets.dir/test_alphabets.cpp.o cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -MD -MT test/CMakeFiles/test_alphabets.dir/test_alphabets.cpp.o -MF CMakeFiles/test_alphabets.dir/test_alphabets.cpp.o.d -o CMakeFiles/test_alphabets.dir/test_alphabets.cpp.o -c /<>/test/test_alphabets.cpp make -f test/CMakeFiles/test_bowker.dir/build.make test/CMakeFiles/test_bowker.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/test /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/test /<>/obj-x86_64-linux-gnu/test/CMakeFiles/test_bowker.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f test/CMakeFiles/test_bowker.dir/build.make test/CMakeFiles/test_bowker.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' [ 93%] Building CXX object test/CMakeFiles/test_bowker.dir/test_bowker.cpp.o cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -MD -MT test/CMakeFiles/test_bowker.dir/test_bowker.cpp.o -MF CMakeFiles/test_bowker.dir/test_bowker.cpp.o.d -o CMakeFiles/test_bowker.dir/test_bowker.cpp.o -c /<>/test/test_bowker.cpp In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/VectorSiteContainer.h:43, from /<>/test/test_alignment_scores.cpp:41: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/test/test_alphabets.cpp:44: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Alphabet/AlphabetTools.h:47, from /<>/test/test_bowker.cpp:41: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 94%] Linking CXX static library libbpp-seq.a cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/bpp-seq-static.dir/cmake_clean_target.cmake cd /<>/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-seq-static.dir/link.txt --verbose=1 /usr/bin/ar qc libbpp-seq.a "CMakeFiles/bpp-seq-static.dir/Bpp/Seq/Alphabet/AbstractAlphabet.cpp.o" 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test_alignment_scores cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_alignment_scores.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_alignment_scores.dir/test_alignment_scores.cpp.o -o test_alignment_scores -Wl,-rpath,/<>/obj-x86_64-linux-gnu/src ../src/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 [ 95%] Linking CXX executable test_alphabets cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_alphabets.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_alphabets.dir/test_alphabets.cpp.o -o test_alphabets -Wl,-rpath,/<>/obj-x86_64-linux-gnu/src ../src/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [ 95%] Built target test_alignment_scores make -f test/CMakeFiles/test_containers.dir/build.make test/CMakeFiles/test_containers.dir/depend [ 95%] Built target test_alphabets make -f test/CMakeFiles/test_io.dir/build.make test/CMakeFiles/test_io.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/test /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/test /<>/obj-x86_64-linux-gnu/test/CMakeFiles/test_containers.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/test /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/test /<>/obj-x86_64-linux-gnu/test/CMakeFiles/test_io.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f test/CMakeFiles/test_containers.dir/build.make test/CMakeFiles/test_containers.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f test/CMakeFiles/test_io.dir/build.make test/CMakeFiles/test_io.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' [ 96%] Building CXX object test/CMakeFiles/test_containers.dir/test_containers.cpp.o cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -MD -MT test/CMakeFiles/test_containers.dir/test_containers.cpp.o -MF CMakeFiles/test_containers.dir/test_containers.cpp.o.d -o CMakeFiles/test_containers.dir/test_containers.cpp.o -c /<>/test/test_containers.cpp [ 97%] Building CXX object test/CMakeFiles/test_io.dir/test_io.cpp.o cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -MD -MT test/CMakeFiles/test_io.dir/test_io.cpp.o -MF CMakeFiles/test_io.dir/test_io.cpp.o.d -o CMakeFiles/test_io.dir/test_io.cpp.o -c /<>/test/test_io.cpp /usr/bin/ranlib libbpp-seq.a [ 97%] Linking CXX executable test_bowker cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_bowker.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_bowker.dir/test_bowker.cpp.o -o test_bowker -Wl,-rpath,/<>/obj-x86_64-linux-gnu/src ../src/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [ 97%] Built target test_bowker make -f test/CMakeFiles/test_sequences.dir/build.make test/CMakeFiles/test_sequences.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/test /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/test /<>/obj-x86_64-linux-gnu/test/CMakeFiles/test_sequences.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f test/CMakeFiles/test_sequences.dir/build.make test/CMakeFiles/test_sequences.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' [ 98%] Building CXX object test/CMakeFiles/test_sequences.dir/test_sequences.cpp.o make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -MD -MT test/CMakeFiles/test_sequences.dir/test_sequences.cpp.o -MF CMakeFiles/test_sequences.dir/test_sequences.cpp.o.d -o CMakeFiles/test_sequences.dir/test_sequences.cpp.o -c /<>/test/test_sequences.cpp [ 98%] Built target bpp-seq-static make -f test/CMakeFiles/test_walker.dir/build.make test/CMakeFiles/test_walker.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/test /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/test /<>/obj-x86_64-linux-gnu/test/CMakeFiles/test_walker.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f test/CMakeFiles/test_walker.dir/build.make test/CMakeFiles/test_walker.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' [ 99%] Building CXX object test/CMakeFiles/test_walker.dir/test_walker.cpp.o cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -MD -MT test/CMakeFiles/test_walker.dir/test_walker.cpp.o -MF CMakeFiles/test_walker.dir/test_walker.cpp.o.d -o CMakeFiles/test_walker.dir/test_walker.cpp.o -c /<>/test/test_walker.cpp In file included from /<>/src/Bpp/Seq/Io/../Sequence.h:44, from /<>/src/Bpp/Seq/Io/ISequence.h:46, from /<>/src/Bpp/Seq/Io/AbstractISequence.h:43, from /<>/src/Bpp/Seq/Io/Fasta.h:45, from /<>/test/test_io.cpp:41: /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Io/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Container/../Site.h:43, from /<>/src/Bpp/Seq/Container/VectorSiteContainer.h:43, from /<>/test/test_containers.cpp:41: /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Container/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Io/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Io/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Container/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Container/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Alphabet/../Sequence.h:44, from /<>/src/Bpp/Seq/Alphabet/WordAlphabet.h:49, from /<>/src/Bpp/Seq/Alphabet/CodonAlphabet.h:44, from /<>/src/Bpp/Seq/Alphabet/AlphabetTools.h:47, from /<>/test/test_sequences.cpp:41: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/Alphabet/../SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/Alphabet/../SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ In file included from /<>/src/Bpp/Seq/Sequence.h:44, from /<>/test/test_walker.cpp:42: /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::BasicSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:370:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 370 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/algorithm:61, from /<>/src/Bpp/Seq/SymbolList.h:49: /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ /<>/src/Bpp/Seq/SymbolList.h: In member function ‘virtual void bpp::EdSymbolList::shuffle()’: /<>/src/Bpp/Seq/SymbolList.h:614:21: warning: ‘void std::random_shuffle(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ is deprecated: use 'std::shuffle' instead [-Wdeprecated-declarations] 614 | random_shuffle(content_.begin(), content_.end()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:4581:5: note: declared here 4581 | random_shuffle(_RandomAccessIterator __first, _RandomAccessIterator __last) | ^~~~~~~~~~~~~~ [ 99%] Linking CXX executable test_containers cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_containers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_containers.dir/test_containers.cpp.o -o test_containers -Wl,-rpath,/<>/obj-x86_64-linux-gnu/src ../src/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [ 99%] Built target test_containers [ 99%] Linking CXX executable test_sequences cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sequences.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_sequences.dir/test_sequences.cpp.o -o test_sequences -Wl,-rpath,/<>/obj-x86_64-linux-gnu/src ../src/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [ 99%] Built target test_sequences [100%] Linking CXX executable test_walker cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_walker.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_walker.dir/test_walker.cpp.o -o test_walker -Wl,-rpath,/<>/obj-x86_64-linux-gnu/src ../src/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 [100%] Linking CXX executable test_io cd /<>/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_io.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/libbpp-seq-2.4.1-10 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/test_io.dir/test_io.cpp.o -o test_io -Wl,-rpath,/<>/obj-x86_64-linux-gnu/src ../src/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [100%] Built target test_io make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [100%] Built target test_walker make[2]: Leaving directory '/<>/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/<>/obj-x86_64-linux-gnu' dh_auto_test cd obj-x86_64-linux-gnu && make -j4 test ARGS\+=--verbose ARGS\+=-j4 make[1]: Entering directory '/<>/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j4 UpdateCTestConfiguration from :/<>/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/<>/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/<>/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/<>/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /<>/obj-x86_64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 1 Start 1: test_alignment_scores 1: Test command: /<>/obj-x86_64-linux-gnu/test/test_alignment_scores 1: Working Directory: /<>/test 1: Test timeout computed to be: 60000 test 2 Start 2: test_alphabets 2: Test command: /<>/obj-x86_64-linux-gnu/test/test_alphabets 2: Working Directory: /<>/test 2: Test timeout computed to be: 60000 test 3 Start 3: test_bowker 3: Test command: /<>/obj-x86_64-linux-gnu/test/test_bowker 3: Working Directory: /<>/test 3: Test timeout computed to be: 60000 test 4 Start 4: test_containers 4: Test command: /<>/obj-x86_64-linux-gnu/test/test_containers 4: Working Directory: /<>/test 4: Test timeout computed to be: 60000 1: 0 0 0 1 1 1 1 1 1 1 0 0 0 1 1 1 1 0 0 0 0 1 1 1 0 0 0 0 1 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 0 1: 0 0 0 1 1 1 1 1 1 1 0 0 0 1 1 1 1 0 0 0 0 0 0 1 0 0 0 0 1 1 0 1 1 1 1 1 1 1 0 1 0 1 1 1 1 0 0 1: 0 0 0 1 1 1 1 1 1 1 1 1 1 1 0 0 0 1 1 1 0 1 1 1 1 1 1 1 0 1 0 1 1 1 1 1: 0.000000 0.000000 0.000000 1.000000 1.000000 1.000000 1.000000 1.000000 1.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 1.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.333333 0.333333 1.000000 0.000000 0.000000 0.000000 0.000000 1.000000 1.000000 0.000000 1.000000 1.000000 1.000000 1.000000 1.000000 1.000000 1.000000 0.333333 0.000000 0.000000 1.000000 1.000000 1.000000 1.000000 0.000000 0.000000 1: 0.000000 0.000000 0.000000 1.000000 1.000000 1.000000 1.000000 1.000000 1.000000 1.000000 1.000000 0.000000 1.000000 1.000000 1.000000 0.000000 1.000000 1.000000 1.000000 1.000000 0.000000 1.000000 1.000000 1.000000 1.000000 1.000000 1.000000 1.000000 0.000000 0.000000 0.333333 1.000000 1.000000 1.000000 1.000000 1/7 Test #1: test_alignment_scores ............ Passed 0.00 sec test 5 Start 5: test_io 5: Test command: /<>/obj-x86_64-linux-gnu/test/test_io 5: Working Directory: /<>/test 5: Test timeout computed to be: 60000 2/7 Test #2: test_alphabets ................... Passed 0.00 sec test 6 Start 6: test_sequences 6: Test command: /<>/obj-x86_64-linux-gnu/test/test_sequences 6: Working Directory: /<>/test 6: Test timeout computed to be: 60000 4: 47 4: ----AUGCCG---GCGU----UUU----G--G-CCGACGUGUUUU-- 4: ---GAAGGCG---G-GU----UUU----GC-GACCGACG--UUUU-- 4: [>>> ] 8% [>>>> ] 12% [>>>>>> ] 17% [>>>>>>>> ] 21% [>>>>>>>>> ] 25% [>>>>>>>>>>> ] 29% [>>>>>>>>>>>> ] 34% [>>>>>>>>>>>>>> ] 38% [>>>>>>>>>>>>>>>> ] 42% [>>>>>>>>>>>>>>>>>>> ] 51% [>>>>>>>>>>>>>>>>>>>>> ] 55% [>>>>>>>>>>>>>>>>>>>>>>>>> ] 68% [>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 72% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 80% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 85% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 89% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 93% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>] 100% 4: 30 4: -AUGCCGGCGUUUUG-G-CCGACGUGUUUU 4: GAAGGCGG-GUUUUGCGACCGACG--UUUU 3/7 Test #4: test_containers .................. Passed 0.00 sec test 7 Start 7: test_walker 7: Test command: /<>/obj-x86_64-linux-gnu/test/test_walker 7: Working Directory: /<>/test 7: Test timeout computed to be: 60000 3: 2 0.919699 6: --- Strict match --- 6: ATTT: 0 6: TCG: 3 6: GATC: 29 6: CGTC: 33 6: CWCAT: 19 6: --- Degenerated match --- 6: CTCAT: 19 6: AAGCA: 16 4/7 Test #6: test_sequences ................... Passed 0.00 sec 7: 0 A 4 7: 1 U 5 7: 2 G 6 7: 3 C 7 7: 4 C 8 7: 5 G 9 7: 6 G 13 7: 7 C 14 7: 8 G 15 7: 9 U 16 7: 10 U 21 7: 11 U 22 7: 12 U 23 7: 13 G 28 7: 14 G 31 7: 15 C 33 7: 16 C 34 7: 17 G 35 7: 18 A 36 7: 19 C 37 7: 20 G 38 7: 21 U 39 7: 22 G 40 7: 23 U 41 7: 24 U 42 7: 25 U 43 7: 26 U 44 7: 7: 0 7: 4 7: 26 7: 44 5: example.fasta contains 100 sequences 7: [ ] 0% [= ] 2% [== ] 5% [=== ] 8% [==== ] 10% [===== ] 13% [====== ] 16% [======= ] 18% [======== ] 21% [========= ] 24% [========== ] 27% [=========== ] 29% [============ ] 32% [============= ] 35% [============== ] 37% [=============== ] 40% [================ ] 43% [================= ] 45% [================== ] 48% [=================== ] 51% [==================== ] 54% [===================== ] 56% [====================== ] 59% [======================= ] 62% [======================== ] 64% [========================= ] 67% [========================== ] 70% [=========================== ] 72% [============================ ] 75% [============================= ] 78% [============================== ] 81% [=============================== ] 83% [================================ ] 86% [================================= ] 89% [================================== ] 91% [=================================== ] 94% [==================================== ] 97% [======================================] 100% 7: 0 7: 4 7: 26 7: 44 7: [ ] 0% [= ] 2% [== ] 5% [=== ] 8% [==== ] 10% [===== ] 13% [====== ] 16% [======= ] 18% [======== ] 21% [========= ] 24% [========== ] 27% [=========== ] 29% [============ ] 32% [============= ] 35% [============== ] 37% [=============== ] 40% [================ ] 43% [================= ] 45% [================== ] 48% [=================== ] 51% [==================== ] 54% [===================== ] 56% [====================== ] 59% [======================= ] 62% [======================== ] 64% [========================= ] 67% [========================== ] 70% [=========================== ] 72% [============================ ] 75% [============================= ] 78% [============================== ] 81% [=============================== ] 83% [================================ ] 86% [================================= ] 89% [================================== ] 91% [=================================== ] 94% [==================================== ] 97% [======================================] 100% 7: 0 7: 4 7: 26 7: 44 7: [ ] 0% [= ] 2% [== ] 5% [=== ] 8% [==== ] 10% [===== ] 13% [====== ] 16% [======= ] 18% [======== ] 21% [========= ] 24% [========== ] 27% [=========== ] 29% [============ ] 32% [============= ] 35% [============== ] 37% [=============== ] 40% [================ ] 43% [================= ] 45% [================== ] 48% [=================== ] 51% [==================== ] 54% [===================== ] 56% [====================== ] 59% [======================= ] 62% [======================== ] 64% [========================= ] 67% [========================== ] 70% [=========================== ] 72% [============================ ] 75% [============================= ] 78% [============================== ] 81% [=============================== ] 83% [================================ ] 86% [================================= ] 89% [================================== ] 91% [=================================== ] 94% [==================================== ] 97% [======================================] 100% 7: _________________________________________________ 7: 0 - 0 7: 1 - 0 7: 2 - 0 7: 3 - 0 7: 4 A 0 7: 5 U 1 7: 6 G 2 7: 7 C 3 7: 8 C 4 7: 9 G 5 7: 10 - 5 7: 11 - 5 7: 12 - 5 7: 13 G 6 7: 14 C 7 7: 15 G 8 7: 16 U 9 7: 17 - 9 7: 18 - 9 7: 19 - 9 7: 20 - 9 7: 21 U 10 7: 22 U 11 7: 23 U 12 7: 24 - 12 7: 25 - 12 7: 26 - 12 7: 27 - 12 7: 28 G 13 7: 29 - 13 7: 30 - 13 7: 31 G 14 7: 32 - 14 7: 33 C 15 7: 34 C 16 7: 35 G 17 7: 36 A 18 7: 37 C 19 7: 38 G 20 7: 39 U 21 7: 40 G 22 7: 41 U 23 7: 42 U 24 7: 43 U 25 7: 44 U 26 7: 45 - 26 7: 46 - 26 7: 7: 0 7: 0 7: 46 7: 26 7: [ ] 0% [= ] 2% [== ] 5% [=== ] 8% [==== ] 10% [===== ] 13% [====== ] 16% [======= ] 18% [======== ] 21% [========= ] 24% [========== ] 27% [=========== ] 29% [============ ] 32% [============= ] 35% [============== ] 37% [=============== ] 40% [================ ] 43% [================= ] 45% [================== ] 48% [=================== ] 51% [==================== ] 54% [===================== ] 56% [====================== ] 59% [======================= ] 62% [======================== ] 64% [========================= ] 67% [========================== ] 70% [=========================== ] 72% [============================ ] 75% [============================= ] 78% [============================== ] 81% [=============================== ] 83% [================================ ] 86% [================================= ] 89% [================================== ] 91% [=================================== ] 94% [==================================== ] 97% [======================================] 100% 7: 0 7: 0 7: 46 7: 26 7: [ ] 0% [= ] 2% [== ] 5% [=== ] 8% [==== ] 10% [===== ] 13% [====== ] 16% [======= ] 18% [======== ] 21% [========= ] 24% [========== ] 27% [=========== ] 29% [============ ] 32% [============= ] 35% [============== ] 37% [=============== ] 40% [================ ] 43% [================= ] 45% [================== ] 48% [=================== ] 51% [==================== ] 54% [===================== ] 56% [====================== ] 59% [======================= ] 62% [======================== ] 64% [========================= ] 67% [========================== ] 70% [=========================== ] 72% [============================ ] 75% [============================= ] 78% [============================== ] 81% [=============================== ] 83% [================================ ] 86% [================================= ] 89% [================================== ] 91% [=================================== ] 94% [==================================== ] 97% [======================================] 100% 7: 0 7: 0 7: 46 7: 26 7: [ ] 0% [= ] 2% [== ] 5% [=== ] 8% [==== ] 10% [===== ] 13% [====== ] 16% [======= ] 18% [======== ] 21% [========= ] 24% [========== ] 27% [=========== ] 29% [============ ] 32% [============= ] 35% [============== ] 37% [=============== ] 40% [================ ] 43% [================= ] 45% [================== ] 48% [=================== ] 51% [==================== ] 54% [===================== ] 56% [====================== ] 59% [======================= ] 62% [======================== ] 64% [========================= ] 67% [========================== ] 70% [=========================== ] 72% [============================ ] 75% [============================= ] 78% [============================== ] 81% [=============================== ] 83% [================================ ] 86% [================================= ] 89% [================================== ] 91% [=================================== ] 94% [==================================== ] 97% [======================================] 100% 5/7 Test #7: test_walker ...................... Passed 0.01 sec 5: 100 1209 5: 100 1209 5: 100 1209 5: 100 1209 5: 100 1209 6/7 Test #5: test_io .......................... Passed 0.03 sec 3: [ ] 0% [> ] 2% [>> ] 5% [>>> ] 7% [>>>> ] 10% [>>>>> ] 13% [>>>>>> ] 15% [>>>>>>> ] 18% [>>>>>>>> ] 21% [>>>>>>>>> ] 23% [>>>>>>>>>> ] 26% [>>>>>>>>>>> ] 29% [>>>>>>>>>>>> ] 31% [>>>>>>>>>>>>> ] 34% [>>>>>>>>>>>>>> ] 36% [>>>>>>>>>>>>>>> ] 39% [>>>>>>>>>>>>>>>> ] 42% [>>>>>>>>>>>>>>>>> ] 44% [>>>>>>>>>>>>>>>>>> ] 47% [>>>>>>>>>>>>>>>>>>> ] 50% [>>>>>>>>>>>>>>>>>>>> ] 52% [>>>>>>>>>>>>>>>>>>>>> ] 55% [>>>>>>>>>>>>>>>>>>>>>> ] 58% [>>>>>>>>>>>>>>>>>>>>>>> ] 60% [>>>>>>>>>>>>>>>>>>>>>>>> ] 63% [>>>>>>>>>>>>>>>>>>>>>>>>> ] 66% [>>>>>>>>>>>>>>>>>>>>>>>>>> ] 68% [>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 71% [>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 73% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 76% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 79% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 81% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 84% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 87% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 89% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 92% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 95% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 97% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>] 100%0.0092 0.0516 0.1028 0.4958 3: [ ] 0% [> ] 2% [>> ] 5% [>>> ] 7% [>>>> ] 10% [>>>>> ] 13% [>>>>>> ] 15% [>>>>>>> ] 18% [>>>>>>>> ] 21% [>>>>>>>>> ] 23% [>>>>>>>>>> ] 26% [>>>>>>>>>>> ] 29% [>>>>>>>>>>>> ] 31% [>>>>>>>>>>>>> ] 34% [>>>>>>>>>>>>>> ] 36% [>>>>>>>>>>>>>>> ] 39% [>>>>>>>>>>>>>>>> ] 42% [>>>>>>>>>>>>>>>>> ] 44% [>>>>>>>>>>>>>>>>>> ] 47% [>>>>>>>>>>>>>>>>>>> ] 50% [>>>>>>>>>>>>>>>>>>>> ] 52% [>>>>>>>>>>>>>>>>>>>>> ] 55% [>>>>>>>>>>>>>>>>>>>>>> ] 58% [>>>>>>>>>>>>>>>>>>>>>>> ] 60% [>>>>>>>>>>>>>>>>>>>>>>>> ] 63% [>>>>>>>>>>>>>>>>>>>>>>>>> ] 66% [>>>>>>>>>>>>>>>>>>>>>>>>>> ] 68% [>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 71% [>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 73% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 76% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 79% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 81% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 84% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 87% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 89% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 92% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 95% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ] 97% [>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>] 100%0.0126 0.0546 0.1028 0.5086 7/7 Test #3: test_bowker ...................... Passed 16.86 sec 100% tests passed, 0 tests failed out of 7 Total Test time (real) = 16.86 sec make[1]: Leaving directory '/<>/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-x86_64-linux-gnu && make -j4 install DESTDIR=/<>/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/obj-x86_64-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-seq/bpp-seq-config.cmake -- Installing: /<>/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-seq/bpp-seq-config-version.cmake -- Installing: /<>/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-seq.a -- Installing: /<>/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 -- Installing: /<>/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-seq.so.12 -- Installing: /<>/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-seq.so -- Installing: /<>/debian/tmp/usr/include/Bpp -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SiteIterator.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/CoreSite.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Site.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/CodonSiteTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SymbolList.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SequenceTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/DistanceMatrix.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SequenceExceptions.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/App -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/App/SequenceApplicationTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SiteExceptions.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SequenceWithAnnotationTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/NucleicAlphabetState.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/LexicalAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/IntegerAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/AlphabetTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/RNA.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/RNY.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/AbstractAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/NumericAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/CaseMaskedAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/AlphabetExceptions.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/DNA.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/ProteicAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/DefaultAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/ProteicAlphabetState.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/NucleicAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/CodonAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/LetterAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/AlphabetState.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/BinaryAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/Alphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/AlphabetNumericState.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Alphabet/WordAlphabet.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SequenceWithQualityTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/BppOSequenceWriterFormat.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/BppOAlignmentWriterFormat.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/StreamSequenceIterator.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/AbstractIAlignment.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/Clustal.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/BppOAlphabetIndex2Format.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/Mase.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/Stockholm.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/SequenceFileIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/BppOAlphabetIndex1Format.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/BppOSequenceStreamReaderFormat.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/AbstractOSequence.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/GenBank.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/IoSequenceFactory.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/ISequence.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/OSequence.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/AbstractISequence.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/OSequenceStream.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/IoSequenceStream.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/PhredPoly.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/BppOAlignmentReaderFormat.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/Dcse.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/PhredPhd.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/MaseTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/BppOSequenceReaderFormat.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/NexusTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/IoSequence.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/ISequenceStream.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/NexusIoSequence.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/AbstractOAlignment.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/Phylip.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Io/Fasta.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/NucleicAcidsReplication.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SiteTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/DNAToRNA.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Transliterator.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Sequence.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SymbolListTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SequenceIterator.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SequenceWithAnnotation.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SequencePositionIterators.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/CoreSequence.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AAChenGuHuangHydrophobicityIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/GranthamAAPolarityIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AAChouFasmanAHelixIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/KleinAANetChargeIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/BLOSUM50.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AASEAInf10Index.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AAMassIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AASurfaceIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/SimpleIndexDistance.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/SimpleScore.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/DefaultNucleotideScore.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AAChouFasmanBSheetIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AASEASup30Index.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/GranthamAAVolumeIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/MiyataAAChemicalDistance.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AlphabetIndex1.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/UserAlphabetIndex1.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AAChouFasmanTurnIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AAChargeIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AAIndex1Entry.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AlphabetIndex2.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/GranthamAAChemicalDistance.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AASEA1030Index.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AAIndex2Entry.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/AlphabetIndex/AAVolumeIndex.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SequenceWalker.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/GeneticCode -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/GeneticCode/VertebrateMitochondrialGeneticCode.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/GeneticCode/InvertebrateMitochondrialGeneticCode.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/GeneticCode/StandardGeneticCode.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/GeneticCode/YeastMitochondrialGeneticCode.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/GeneticCode/MoldMitochondrialGeneticCode.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/GeneticCode/EchinodermMitochondrialGeneticCode.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/GeneticCode/AscidianMitochondrialGeneticCode.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/GeneticCode/GeneticCode.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/StringSequenceTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/SequenceWithQuality.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/VectorSiteContainer.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/SequenceContainer.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/OrderedSequenceContainer.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/SequenceContainerExceptions.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/SequenceContainerTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/VectorSequenceContainer.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/AlignedSequenceContainer.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/SiteContainerTools.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/SiteContainer.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/CompressedVectorSiteContainer.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/SiteContainerExceptions.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/MapSequenceContainer.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/AbstractSequenceContainer.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/SequenceContainerIterator.h -- Installing: /<>/debian/tmp/usr/include/Bpp/Seq/Container/SiteContainerIterator.h -- Installing: /<>/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-seq/bpp-seq-targets.cmake -- Installing: /<>/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-seq/bpp-seq-targets-none.cmake make[1]: Leaving directory '/<>/obj-x86_64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --movedev debian/tmp/usr/include/* usr/include \ --movedev debian/tmp/usr/lib/*/cmake usr/lib/x86_64-linux-gnu \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility --> libbpp-core-dev package exists. set -e install -d -m 755 debian/libbpp-seq-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libbpp-seq12/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-seq.a debian/libbpp-seq-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-seq.so debian/libbpp-seq-dev/usr/lib/x86_64-linux-gnu mv /<>/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-seq.so.12 debian/libbpp-seq12/usr/lib/x86_64-linux-gnu mv /<>/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 debian/libbpp-seq12/usr/lib/x86_64-linux-gnu PKGDEV=libbpp-seq-dev PKGSHL=libbpp-seq12 install -d -m 755 debian/libbpp-seq-dev/usr/include mv debian/tmp/usr/include/Bpp debian/libbpp-seq-dev/usr/include install -d -m 755 debian/libbpp-seq-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/cmake debian/libbpp-seq-dev/usr/lib/x86_64-linux-gnu make[1]: Leaving directory '/<>' dh_installdocs dh_installchangelogs dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a ea5cb346adee766310c27c4b2ae22403010991b2 dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb INFO: pkgstriptranslations version 153 INFO: pkgstriptranslations version 153 INFO: pkgstriptranslations version 153 pkgstriptranslations: processing libbpp-seq12 (in debian/libbpp-seq12); do_strip: , oemstrip: pkgstriptranslations: processing libbpp-seq-dev (in debian/libbpp-seq-dev); do_strip: , oemstrip: pkgstriptranslations: processing libbpp-seq12-dbgsym (in debian/.debhelper/libbpp-seq12/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libbpp-seq-dev/DEBIAN/control, package libbpp-seq-dev, directory debian/libbpp-seq-dev pkgstripfiles: processing control file: debian/.debhelper/libbpp-seq12/dbgsym-root/DEBIAN/control, package libbpp-seq12-dbgsym, directory debian/.debhelper/libbpp-seq12/dbgsym-root dpkg-deb: building package 'libbpp-seq12-dbgsym' in 'debian/.debhelper/scratch-space/build-libbpp-seq12/libbpp-seq12-dbgsym_2.4.1-10_amd64.deb'. Searching for duplicated docs in dependency libbpp-seq12... symlinking changelog.Debian.gz in libbpp-seq-dev to file in libbpp-seq12 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libbpp-seq-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libbpp-seq-dev' in '../libbpp-seq-dev_2.4.1-10_amd64.deb'. Renaming libbpp-seq12-dbgsym_2.4.1-10_amd64.deb to libbpp-seq12-dbgsym_2.4.1-10_amd64.ddeb pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libbpp-seq12/DEBIAN/control, package libbpp-seq12, directory debian/libbpp-seq12 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libbpp-seq12 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libbpp-seq12' in '../libbpp-seq12_2.4.1-10_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libbpp-seq_2.4.1-10_amd64.buildinfo dpkg-genchanges --build=binary -mLaunchpad Build Daemon -O../libbpp-seq_2.4.1-10_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2023-08-13T17:10:41Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ libbpp-seq_2.4.1-10_amd64.changes: ---------------------------------- Format: 1.8 Date: Sun, 13 Aug 2023 13:21:18 +0200 Source: libbpp-seq Binary: libbpp-seq-dev libbpp-seq12 Built-For-Profiles: noudeb Architecture: amd64 Version: 2.4.1-10 Distribution: mantic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Michael R. Crusoe Description: libbpp-seq-dev - Bio++ Sequence library development files libbpp-seq12 - Bio++ Sequence library Closes: 1037721 1042204 Changes: libbpp-seq (2.4.1-10) unstable; urgency=medium . * Team upload. * Standards-Version: 4.6.2 (routine-update) * Update symbols for gcc-13. Closes: #1037721, #1042204 * d/patches/spelling: fix a typo * d/control: Use ${devlibs:Depends} for the -dev package. Checksums-Sha1: d23d9723ef4120afc90436d21a3030076699b861 800604 libbpp-seq-dev_2.4.1-10_amd64.deb 075b4cd45d92c6ce871f5e7493e478e4ee5f0701 9320266 libbpp-seq12-dbgsym_2.4.1-10_amd64.ddeb fa8354af9d0a4ac9e8ef097d83861df5cec3d1ef 544786 libbpp-seq12_2.4.1-10_amd64.deb 62f452cb1f234a64b84d1804d087f5eafe08d644 7196 libbpp-seq_2.4.1-10_amd64.buildinfo Checksums-Sha256: d03dae94a9cc48eb79d23f63f1248caf25e2e333ff6301b00e8e8fdc8c9bc889 800604 libbpp-seq-dev_2.4.1-10_amd64.deb 5815e3767b4980d2e12956f57239179caaacfe1f7c602f51c5968540dbad1c8e 9320266 libbpp-seq12-dbgsym_2.4.1-10_amd64.ddeb f6e03b5dc34d90fe4b0745532c0d7f64288482a9f519fb7b59bb59bef266419a 544786 libbpp-seq12_2.4.1-10_amd64.deb 2637753e0eefb686ca84fb00bc394eccfad7da313c2b30abaff99e9c69bf7f26 7196 libbpp-seq_2.4.1-10_amd64.buildinfo Files: 727fa1e79b7b3587c50a4b98cd3f0f13 800604 libdevel optional libbpp-seq-dev_2.4.1-10_amd64.deb 2c64e50712717a733304daf6c74020c4 9320266 debug optional libbpp-seq12-dbgsym_2.4.1-10_amd64.ddeb 90a4116b563feb5540f3983f31a38a8c 544786 libs optional libbpp-seq12_2.4.1-10_amd64.deb 4afd0ff607be34718a8b7c296bb0beac 7196 science optional libbpp-seq_2.4.1-10_amd64.buildinfo /<>/libbpp-seq_2.4.1-10_amd64.changes.new could not be renamed to /<>/libbpp-seq_2.4.1-10_amd64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: libbpp-seq Binary: libbpp-seq-dev libbpp-seq12 libbpp-seq12-dbgsym Architecture: amd64 Version: 2.4.1-10 Checksums-Md5: 727fa1e79b7b3587c50a4b98cd3f0f13 800604 libbpp-seq-dev_2.4.1-10_amd64.deb 2c64e50712717a733304daf6c74020c4 9320266 libbpp-seq12-dbgsym_2.4.1-10_amd64.ddeb 90a4116b563feb5540f3983f31a38a8c 544786 libbpp-seq12_2.4.1-10_amd64.deb Checksums-Sha1: d23d9723ef4120afc90436d21a3030076699b861 800604 libbpp-seq-dev_2.4.1-10_amd64.deb 075b4cd45d92c6ce871f5e7493e478e4ee5f0701 9320266 libbpp-seq12-dbgsym_2.4.1-10_amd64.ddeb fa8354af9d0a4ac9e8ef097d83861df5cec3d1ef 544786 libbpp-seq12_2.4.1-10_amd64.deb Checksums-Sha256: d03dae94a9cc48eb79d23f63f1248caf25e2e333ff6301b00e8e8fdc8c9bc889 800604 libbpp-seq-dev_2.4.1-10_amd64.deb 5815e3767b4980d2e12956f57239179caaacfe1f7c602f51c5968540dbad1c8e 9320266 libbpp-seq12-dbgsym_2.4.1-10_amd64.ddeb f6e03b5dc34d90fe4b0745532c0d7f64288482a9f519fb7b59bb59bef266419a 544786 libbpp-seq12_2.4.1-10_amd64.deb Build-Origin: Ubuntu Build-Architecture: amd64 Build-Date: Sun, 13 Aug 2023 17:10:41 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: adduser (= 3.137ubuntu1), apt (= 2.7.3), autoconf (= 2.71-3), automake (= 1:1.16.5-1.3), autopoint (= 0.21-13), autotools-dev (= 20220109.1), base-files (= 13ubuntu1), base-passwd (= 3.6.1), bash (= 5.2.15-2ubuntu1), binutils (= 2.41-4ubuntu1), binutils-common (= 2.41-4ubuntu1), binutils-x86-64-linux-gnu (= 2.41-4ubuntu1), bsdextrautils (= 2.38.1-5ubuntu2), bsdutils (= 1:2.38.1-5ubuntu2), build-essential (= 12.10ubuntu1), bzip2 (= 1.0.8-5build1), cmake (= 3.27.2-1), cmake-data (= 3.27.2-1), coreutils (= 9.1-1ubuntu2), cpp (= 4:13.2.0-1ubuntu1), cpp-12 (= 12.3.0-7ubuntu2), cpp-13 (= 13.2.0-2ubuntu1), d-shlibs (= 0.104), dash (= 0.5.12-6ubuntu1), debconf (= 1.5.82), debhelper (= 13.11.4ubuntu3), debianutils (= 5.8-1), debugedit (= 1:5.0-5), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.1-1), diffutils (= 1:3.8-4), dpkg (= 1.21.22ubuntu1), dpkg-dev (= 1.21.22ubuntu1), dwz (= 0.15-1), file (= 1:5.44-3), findutils (= 4.9.0-5), g++ (= 4:13.2.0-1ubuntu1), g++-13 (= 13.2.0-2ubuntu1), gcc (= 4:13.2.0-1ubuntu1), gcc-12 (= 12.3.0-7ubuntu2), gcc-12-base (= 12.3.0-7ubuntu2), gcc-13 (= 13.2.0-2ubuntu1), gcc-13-base (= 13.2.0-2ubuntu1), gettext (= 0.21-13), gettext-base (= 0.21-13), gpgv (= 2.2.40-1.1ubuntu1), grep (= 3.11-2), groff-base (= 1.23.0-2), gzip (= 1.12-1ubuntu1), hostname (= 3.23+nmu1ubuntu1), init-system-helpers (= 1.65.2ubuntu1), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-3), libapt-pkg6.0 (= 2.7.3), libarchive-zip-perl (= 1.68-1), libarchive13 (= 3.6.2-1ubuntu1), libasan8 (= 13.2.0-2ubuntu1), libatomic1 (= 13.2.0-2ubuntu1), libattr1 (= 1:2.5.1-4), libaudit-common (= 1:3.1.1-1), libaudit1 (= 1:3.1.1-1), libbinutils (= 2.41-4ubuntu1), libblkid1 (= 2.38.1-5ubuntu2), libbpp-core-dev (= 2.4.1-9), libbpp-core4 (= 2.4.1-9), libbrotli1 (= 1.0.9-2build8), libbz2-1.0 (= 1.0.8-5build1), libc-bin (= 2.38-1ubuntu3), libc-dev-bin (= 2.38-1ubuntu3), libc6 (= 2.38-1ubuntu3), libc6-dev (= 2.38-1ubuntu3), libcap-ng0 (= 0.8.3-1build2), libcap2 (= 1:2.66-4ubuntu1), libcc1-0 (= 13.2.0-2ubuntu1), libcom-err2 (= 1.47.0-2ubuntu1), libcrypt-dev (= 1:4.4.36-2), libcrypt1 (= 1:4.4.36-2), libctf-nobfd0 (= 2.41-4ubuntu1), libctf0 (= 2.41-4ubuntu1), libcurl4 (= 8.2.1-1ubuntu2), libdb5.3 (= 5.3.28+dfsg2-2), libdebconfclient0 (= 0.270ubuntu1), libdebhelper-perl (= 13.11.4ubuntu3), libdpkg-perl (= 1.21.22ubuntu1), libdw1 (= 0.189-4), libelf1 (= 0.189-4), libexpat1 (= 2.5.0-2), libffi8 (= 3.4.4-1), libfile-stripnondeterminism-perl (= 1.13.1-1), libgcc-12-dev (= 12.3.0-7ubuntu2), libgcc-13-dev (= 13.2.0-2ubuntu1), libgcc-s1 (= 13.2.0-2ubuntu1), libgcrypt20 (= 1.10.2-2ubuntu1), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgmp10 (= 2:6.3.0+dfsg-2ubuntu3), libgnutls30 (= 3.8.1-3ubuntu1), libgomp1 (= 13.2.0-2ubuntu1), libgpg-error0 (= 1.46-1), libgprofng0 (= 2.41-4ubuntu1), libgssapi-krb5-2 (= 1.20.1-2), libhogweed6 (= 3.9.1-2), libhwasan0 (= 13.2.0-2ubuntu1), libicu72 (= 72.1-3ubuntu2), libidn2-0 (= 2.3.4-1), libisl23 (= 0.26-3), libitm1 (= 13.2.0-2ubuntu1), libjansson4 (= 2.14-2), libjsoncpp25 (= 1.9.5-6), libk5crypto3 (= 1.20.1-2), libkeyutils1 (= 1.6.3-2), libkrb5-3 (= 1.20.1-2), libkrb5support0 (= 1.20.1-2), libldap2 (= 2.6.6+dfsg-1~exp1ubuntu1), liblsan0 (= 13.2.0-2ubuntu1), liblz4-1 (= 1.9.4-1), liblzma5 (= 5.4.1-0.2), libmagic-mgc (= 1:5.44-3), libmagic1 (= 1:5.44-3), libmd0 (= 1.1.0-1), libmount1 (= 2.38.1-5ubuntu2), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.2.0-1), libncursesw6 (= 6.4+20230625-2), libnettle8 (= 3.9.1-2), libnghttp2-14 (= 1.55.1-1), libnsl-dev (= 1.3.0-2build2), libnsl2 (= 1.3.0-2build2), libp11-kit0 (= 0.24.1-2ubuntu1), libpam-modules (= 1.5.2-6ubuntu1), libpam-modules-bin (= 1.5.2-6ubuntu1), libpam-runtime (= 1.5.2-6ubuntu1), libpam0g (= 1.5.2-6ubuntu1), libpcre2-8-0 (= 10.42-2), libperl5.36 (= 5.36.0-7ubuntu1), libpipeline1 (= 1.5.7-1), libproc2-0 (= 2:4.0.3-1ubuntu1), libpsl5 (= 0.21.2-1), libquadmath0 (= 13.2.0-2ubuntu1), librhash0 (= 1.4.3-3), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build4), libsasl2-2 (= 2.1.28+dfsg1-3), libsasl2-modules-db (= 2.1.28+dfsg1-3), libseccomp2 (= 2.5.4-1ubuntu3), libselinux1 (= 3.5-1), libsemanage-common (= 3.5-1), libsemanage2 (= 3.5-1), libsepol2 (= 3.5-1), libsframe1 (= 2.41-4ubuntu1), libsmartcols1 (= 2.38.1-5ubuntu2), libssh-4 (= 0.10.5-2), libssl3 (= 3.0.10-1ubuntu2), libstdc++-13-dev (= 13.2.0-2ubuntu1), libstdc++6 (= 13.2.0-2ubuntu1), libsub-override-perl (= 0.09-4), libsystemd0 (= 253.5-1ubuntu1), libtasn1-6 (= 4.19.0-3), libtinfo6 (= 6.4+20230625-2), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtool (= 2.4.7-7), libtsan2 (= 13.2.0-2ubuntu1), libubsan1 (= 13.2.0-2ubuntu1), libuchardet0 (= 0.0.7-1build2), libudev1 (= 253.5-1ubuntu1), libunistring2 (= 1.0-2), libuuid1 (= 2.38.1-5ubuntu2), libuv1 (= 1.44.2-1), libxml2 (= 2.9.14+dfsg-1.3), libxxhash0 (= 0.8.1-1), libzstd1 (= 1.5.5+dfsg2-1ubuntu2), linux-libc-dev (= 6.3.0-7.7), login (= 1:4.13+dfsg1-1ubuntu1), lto-disabled-list (= 42), m4 (= 1.4.19-3), make (= 4.3-4.1build1), man-db (= 2.11.2-3), mawk (= 1.3.4.20230730-1), ncurses-base (= 6.4+20230625-2), ncurses-bin (= 6.4+20230625-2), passwd (= 1:4.13+dfsg1-1ubuntu1), patch (= 2.7.6-7build2), perl (= 5.36.0-7ubuntu1), perl-base (= 5.36.0-7ubuntu1), perl-modules-5.36 (= 5.36.0-7ubuntu1), po-debconf (= 1.0.21+nmu1), procps (= 2:4.0.3-1ubuntu1), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.9-1), sensible-utils (= 0.0.20), sysvinit-utils (= 3.07-1ubuntu1), tar (= 1.34+dfsg-1.2ubuntu1), ubuntu-keyring (= 2021.03.26), util-linux (= 2.38.1-5ubuntu2), util-linux-extra (= 2.38.1-5ubuntu2), xz-utils (= 5.4.1-0.2), zlib1g (= 1:1.2.13.dfsg-1ubuntu5) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1691925678" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ libbpp-seq-dev_2.4.1-10_amd64.deb --------------------------------- new Debian package, version 2.0. size 800604 bytes: control archive=4321 bytes. 954 bytes, 21 lines control 10816 bytes, 133 lines md5sums Package: libbpp-seq-dev Source: libbpp-seq Version: 2.4.1-10 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 7027 Depends: libbpp-seq12 (= 2.4.1-10), libbpp-core-dev Section: libdevel Priority: optional Multi-Arch: same Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Description: Bio++ Sequence library development files Bio++ is a set of C++ libraries for Bioinformatics, including sequence analysis, phylogenetics, molecular evolution and population genetics. Bio++ is Object Oriented and is designed to be both easy to use and computer efficient. Bio++ intends to help programmers to write computer expensive programs, by providing them a set of re-usable tools. . This package contains the static library and the header files of Bio++ classes for sequence analysis classes. drwxr-xr-x root/root 0 2023-08-13 11:21 ./ drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/ drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/include/ drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/include/Bpp/ drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/include/Bpp/Seq/ drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/include/Bpp/Seq/Alphabet/ -rw-r--r-- root/root 8838 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/AbstractAlphabet.h -rw-r--r-- root/root 17141 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/Alphabet.h -rw-r--r-- root/root 6250 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/AlphabetExceptions.h -rw-r--r-- root/root 2835 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/AlphabetNumericState.h -rw-r--r-- root/root 3834 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/AlphabetState.h -rw-r--r-- root/root 8263 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/AlphabetTools.h -rw-r--r-- root/root 2907 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/BinaryAlphabet.h -rw-r--r-- root/root 4501 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/CaseMaskedAlphabet.h -rw-r--r-- root/root 13007 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/CodonAlphabet.h -rw-r--r-- root/root 3083 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/DNA.h -rw-r--r-- root/root 2991 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/DefaultAlphabet.h -rw-r--r-- root/root 2984 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/IntegerAlphabet.h -rw-r--r-- root/root 4080 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/LetterAlphabet.h -rw-r--r-- root/root 3307 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/LexicalAlphabet.h -rw-r--r-- root/root 8599 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/NucleicAlphabet.h -rw-r--r-- root/root 4181 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/NucleicAlphabetState.h -rw-r--r-- root/root 3759 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/NumericAlphabet.h -rw-r--r-- root/root 4621 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/ProteicAlphabet.h -rw-r--r-- root/root 2784 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/ProteicAlphabetState.h -rw-r--r-- root/root 3032 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/RNA.h -rw-r--r-- root/root 4111 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/RNY.h -rw-r--r-- root/root 15640 2018-08-13 21:41 ./usr/include/Bpp/Seq/Alphabet/WordAlphabet.h drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/include/Bpp/Seq/AlphabetIndex/ -rw-r--r-- root/root 5055 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AAChargeIndex.h -rw-r--r-- root/root 4300 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AAChenGuHuangHydrophobicityIndex.h -rw-r--r-- root/root 3649 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AAChouFasmanAHelixIndex.h -rw-r--r-- root/root 3647 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AAChouFasmanBSheetIndex.h -rw-r--r-- root/root 3570 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AAChouFasmanTurnIndex.h -rw-r--r-- root/root 3271 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AAIndex1Entry.h -rw-r--r-- root/root 4018 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AAIndex2Entry.h -rw-r--r-- root/root 3484 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AAMassIndex.h -rw-r--r-- root/root 3649 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AASEA1030Index.h -rw-r--r-- root/root 3676 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AASEAInf10Index.h -rw-r--r-- root/root 3675 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AASEASup30Index.h -rw-r--r-- root/root 3544 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AASurfaceIndex.h -rw-r--r-- root/root 3563 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AAVolumeIndex.h -rw-r--r-- root/root 3083 2018-08-13 21:41 ./usr/include/Bpp/Seq/AlphabetIndex/AlphabetIndex1.h -rw-r--r-- root/root 3416 2018-08-13 21:41 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libbpp-seq12_2.4.1-10_amd64.deb ------------------------------- new Debian package, version 2.0. size 544786 bytes: control archive=17449 bytes. 922 bytes, 20 lines control 232 bytes, 3 lines md5sums 38 bytes, 1 lines shlibs 224627 bytes, 3319 lines symbols 75 bytes, 2 lines triggers Package: libbpp-seq12 Source: libbpp-seq Version: 2.4.1-10 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 2326 Depends: libbpp-core4 (>= 2.4.1), libc6 (>= 2.29), libgcc-s1 (>= 3.0), libstdc++6 (>= 13.1) Section: libs Priority: optional Multi-Arch: same Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Description: Bio++ Sequence library Bio++ is a set of C++ libraries for Bioinformatics, including sequence analysis, phylogenetics, molecular evolution and population genetics. Bio++ is Object Oriented and is designed to be both easy to use and computer efficient. Bio++ intends to help programmers to write computer expensive programs, by providing them a set of re-usable tools. . This package contains the Bio++ classes for sequence analysis. drwxr-xr-x root/root 0 2023-08-13 11:21 ./ drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/ drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/lib/ drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/lib/x86_64-linux-gnu/ lrwxrwxrwx root/root 0 2023-08-13 11:21 ./usr/lib/x86_64-linux-gnu/libbpp-seq.so.12 -> libbpp-seq.so.12.0.0 -rw-r--r-- root/root 2119912 2023-08-13 11:21 ./usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/share/ drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-08-13 11:21 ./usr/share/doc/libbpp-seq12/ -rw-r--r-- root/root 847 2023-08-13 11:21 ./usr/share/doc/libbpp-seq12/changelog.Debian.gz -rw-r--r-- root/root 23163 2023-08-13 11:21 ./usr/share/doc/libbpp-seq12/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: binary Build-Space: 341168 Build-Time: 103 Distribution: mantic-proposed Host Architecture: amd64 Install-Time: 5 Job: libbpp-seq_2.4.1-10.dsc Machine Architecture: amd64 Package: libbpp-seq Package-Time: 109 Source-Version: 2.4.1-10 Space: 341168 Status: successful Version: 2.4.1-10 -------------------------------------------------------------------------------- Finished at 2023-08-13T17:10:41Z Build needed 00:01:49, 341168k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26502251 Scanning for processes to kill in build PACKAGEBUILD-26502251