sbuild (Debian sbuild) 0.85.0 (04 January 2023) on debian-ci-siliconvalley +==============================================================================+ | libmems 1.6.0+4725-11 (armel) Tue, 15 Oct 2024 10:45:19 +0000 | +==============================================================================+ Package: libmems Version: 1.6.0+4725-11 Source Version: 1.6.0+4725-11 Distribution: unstable Machine Architecture: amd64 Host Architecture: armel Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/sid-amd64-sbuild-d64a9cd0-7626-4f0d-9d36-82f22fdfe0c5' with '<>' I: NOTICE: Log filtering will replace 'build/libmems-zWXtNC/resolver-BDSYSk' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://localhost:3142/debian sid InRelease [202 kB] Get:2 http://localhost:3142/debian sid/main Sources.diff/Index [63.6 kB] Get:3 http://localhost:3142/debian sid/main amd64 Packages.diff/Index [63.6 kB] Get:4 http://localhost:3142/debian sid/main Sources T-2024-10-15-0806.39-F-2024-10-15-0300.55.pdiff [25.4 kB] Get:5 http://localhost:3142/debian sid/main amd64 Packages T-2024-10-15-0806.39-F-2024-10-15-0300.55.pdiff [97.7 kB] Get:4 http://localhost:3142/debian sid/main Sources T-2024-10-15-0806.39-F-2024-10-15-0300.55.pdiff [25.4 kB] Get:6 http://localhost:3142/debian sid/main armel Packages [9489 kB] Get:5 http://localhost:3142/debian sid/main amd64 Packages T-2024-10-15-0806.39-F-2024-10-15-0300.55.pdiff [97.7 kB] Fetched 9942 kB in 3s (3413 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'libmems' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libmems.git Please use: git clone https://salsa.debian.org/med-team/libmems.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 249 kB of source archives. Get:1 http://localhost:3142/debian sid/main libmems 1.6.0+4725-11 (dsc) [2380 B] Get:2 http://localhost:3142/debian sid/main libmems 1.6.0+4725-11 (tar) [237 kB] Get:3 http://localhost:3142/debian sid/main libmems 1.6.0+4725-11 (diff) [10.3 kB] Fetched 249 kB in 1s (404 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/libmems-zWXtNC/libmems-1.6.0+4725' with '<>' I: NOTICE: Log filtering will replace 'build/libmems-zWXtNC' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: dpkg-dev (>= 1.22.5), debhelper-compat (= 13), d-shlibs (>= 0.106~), pkgconf, libgenome-dev, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libmuscle-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armel:amd64, libc-dev:armel, libstdc++-dev:armel Filtered Build-Depends: dpkg-dev (>= 1.22.5), debhelper-compat (= 13), d-shlibs (>= 0.106~), pkgconf, libgenome-dev, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libmuscle-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armel:amd64, libc-dev:armel, libstdc++-dev:armel 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 [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [876 B] Get:5 copy:/<>/apt_archive ./ Packages [919 B] Fetched 2404 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... Execute external solver... The following packages were automatically installed and are no longer required: login mount tzdata Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabi bsdextrautils cpp-14-arm-linux-gnueabi cpp-arm-linux-gnueabi crossbuild-essential-armel d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file g++-14-arm-linux-gnueabi g++-arm-linux-gnueabi gcc-14-arm-linux-gnueabi gcc-14-arm-linux-gnueabi-base gcc-14-base:armel gcc-14-cross-base-ports gcc-arm-linux-gnueabi gettext gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl libasan8:armel libasan8-armel-cross libatomic1:armel libatomic1-armel-cross libboost-atomic1.83-dev:armel libboost-atomic1.83.0:armel libboost-filesystem-dev:armel libboost-filesystem1.83-dev:armel libboost-filesystem1.83.0:armel libboost-iostreams-dev:armel libboost-iostreams1.83-dev:armel libboost-iostreams1.83.0:armel libboost-program-options-dev:armel libboost-program-options1.83-dev:armel libboost-program-options1.83.0:armel libboost-regex1.83-dev:armel libboost-regex1.83.0:armel libboost-system1.83-dev:armel libboost-system1.83.0:armel libboost1.83-dev:armel libbz2-1.0:armel libc6:armel libc6-armel-cross libc6-dev:armel libc6-dev-armel-cross libcrypt-dev:armel libcrypt1:armel libdebhelper-perl libelf1t64 libfakeroot libfile-stripnondeterminism-perl libgcc-14-dev:armel libgcc-14-dev-armel-cross libgcc-s1:armel libgcc-s1-armel-cross libgenome-dev:armel libgenome0:armel libgomp1:armel libgomp1-armel-cross libicu-dev:armel libicu72 libicu72:armel liblzma5:armel libmagic-mgc libmagic1t64 libmuscle-dev:armel libmuscle1:armel libpipeline1 libpkgconf3 libstdc++-14-dev:armel libstdc++-14-dev-armel-cross libstdc++6:armel libstdc++6-armel-cross libtool libubsan1:armel libubsan1-armel-cross libuchardet0 libxml2 libzstd1:armel linux-libc-dev-armel-cross m4 man-db pkgconf:armel pkgconf-bin po-debconf sensible-utils zlib1g:armel Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc gcc-14-locales cpp-14-doc cpp-doc dh-make gcc-14-doc manpages-dev flex bison gdb-arm-linux-gnueabi gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff libboost1.83-doc:armel libboost-chrono1.83-dev:armel libboost-container1.83-dev:armel libboost-context1.83-dev:armel libboost-contract1.83-dev:armel libboost-coroutine1.83-dev:armel libboost-date-time1.83-dev:armel libboost-exception1.83-dev:armel libboost-fiber1.83-dev:armel libboost-graph-parallel1.83-dev:armel libboost-graph1.83-dev:armel libboost-json1.83-dev:armel libboost-locale1.83-dev:armel libboost-log1.83-dev:armel libboost-math1.83-dev:armel libboost-mpi-python1.83-dev:armel libboost-mpi1.83-dev:armel libboost-nowide1.83-dev:armel libboost-numpy1.83-dev:armel libboost-python1.83-dev:armel libboost-random1.83-dev:armel libboost-serialization1.83-dev:armel libboost-stacktrace1.83-dev:armel libboost-test1.83-dev:armel libboost-thread1.83-dev:armel libboost-timer1.83-dev:armel libboost-type-erasure1.83-dev:armel libboost-url1.83-dev:armel libboost-wave1.83-dev:armel libboost1.83-tools-dev:armel libmpfrc++-dev:armel libntl-dev:armel glibc-doc:armel libc-l10n:armel locales:armel libnss-nis:armel libnss-nisplus:armel manpages-dev:armel icu-doc:armel libstdc++-14-doc:armel libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libidn2-0:armel libarchive-cpio-perl libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabi bsdextrautils cpp-14-arm-linux-gnueabi cpp-arm-linux-gnueabi crossbuild-essential-armel d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file g++-14-arm-linux-gnueabi g++-arm-linux-gnueabi gcc-14-arm-linux-gnueabi gcc-14-arm-linux-gnueabi-base gcc-14-base:armel gcc-14-cross-base-ports gcc-arm-linux-gnueabi gettext gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl libasan8:armel libasan8-armel-cross libatomic1:armel libatomic1-armel-cross libboost-atomic1.83-dev:armel libboost-atomic1.83.0:armel libboost-filesystem-dev:armel libboost-filesystem1.83-dev:armel libboost-filesystem1.83.0:armel libboost-iostreams-dev:armel libboost-iostreams1.83-dev:armel libboost-iostreams1.83.0:armel libboost-program-options-dev:armel libboost-program-options1.83-dev:armel libboost-program-options1.83.0:armel libboost-regex1.83-dev:armel libboost-regex1.83.0:armel libboost-system1.83-dev:armel libboost-system1.83.0:armel libboost1.83-dev:armel libbz2-1.0:armel libc6:armel libc6-armel-cross libc6-dev:armel libc6-dev-armel-cross libcrypt-dev:armel libcrypt1:armel libdebhelper-perl libelf1t64 libfakeroot libfile-stripnondeterminism-perl libgcc-14-dev:armel libgcc-14-dev-armel-cross libgcc-s1:armel libgcc-s1-armel-cross libgenome-dev:armel libgenome0:armel libgomp1:armel libgomp1-armel-cross libicu-dev:armel libicu72 libicu72:armel liblzma5:armel libmagic-mgc libmagic1t64 libmuscle-dev:armel libmuscle1:armel libpipeline1 libpkgconf3 libstdc++-14-dev:armel libstdc++-14-dev-armel-cross libstdc++6:armel libstdc++6-armel-cross libtool libubsan1:armel libubsan1-armel-cross libuchardet0 libxml2 libzstd1:armel linux-libc-dev-armel-cross m4 man-db pkgconf:armel pkgconf-bin po-debconf sbuild-build-depends-main-dummy:armel sensible-utils zlib1g:armel 0 upgraded, 97 newly installed, 0 to remove and 0 not upgraded. Need to get 123 MB of archives. After this operation, 623 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [992 B] Get:2 http://localhost:3142/debian sid/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:3 http://localhost:3142/debian sid/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get:4 http://localhost:3142/debian sid/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get:5 http://localhost:3142/debian sid/main amd64 file amd64 1:5.45-3 [42.9 kB] Get:6 http://localhost:3142/debian sid/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get:7 http://localhost:3142/debian sid/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get:8 http://localhost:3142/debian sid/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get:9 http://localhost:3142/debian sid/main amd64 bsdextrautils amd64 2.40.2-9 [97.2 kB] Get:10 http://localhost:3142/debian sid/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get:11 http://localhost:3142/debian sid/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get:12 http://localhost:3142/debian sid/main amd64 m4 amd64 1.4.19-4 [287 kB] Get:13 http://localhost:3142/debian sid/main amd64 autoconf all 2.72-3 [493 kB] Get:14 http://localhost:3142/debian sid/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:15 http://localhost:3142/debian sid/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:16 http://localhost:3142/debian sid/main amd64 autopoint all 0.22.5-2 [723 kB] Get:17 http://localhost:3142/debian sid/main amd64 binutils-arm-linux-gnueabi amd64 2.43.1-5 [3305 kB] Get:18 http://localhost:3142/debian sid/main amd64 gcc-14-arm-linux-gnueabi-base amd64 14.2.0-6cross1 [46.9 kB] Get:19 http://localhost:3142/debian sid/main amd64 cpp-14-arm-linux-gnueabi amd64 14.2.0-6cross1 [10.4 MB] Get:20 http://localhost:3142/debian sid/main amd64 cpp-arm-linux-gnueabi amd64 4:14.2.0-1 [4132 B] Get:21 http://localhost:3142/debian sid/main amd64 gcc-14-cross-base-ports all 14.2.0-6cross1 [42.2 kB] Get:22 http://localhost:3142/debian sid/main amd64 libc6-armel-cross all 2.40-3cross1 [912 kB] Get:23 http://localhost:3142/debian sid/main amd64 libgcc-s1-armel-cross all 14.2.0-6cross1 [39.0 kB] Get:24 http://localhost:3142/debian sid/main amd64 libgomp1-armel-cross all 14.2.0-6cross1 [110 kB] Get:25 http://localhost:3142/debian sid/main amd64 libatomic1-armel-cross all 14.2.0-6cross1 [9256 B] Get:26 http://localhost:3142/debian sid/main amd64 libasan8-armel-cross all 14.2.0-6cross1 [2536 kB] Get:27 http://localhost:3142/debian sid/main amd64 libstdc++6-armel-cross all 14.2.0-6cross1 [546 kB] Get:28 http://localhost:3142/debian sid/main amd64 libubsan1-armel-cross all 14.2.0-6cross1 [1034 kB] Get:29 http://localhost:3142/debian sid/main amd64 libgcc-14-dev-armel-cross all 14.2.0-6cross1 [761 kB] Get:30 http://localhost:3142/debian sid/main amd64 gcc-14-arm-linux-gnueabi amd64 14.2.0-6cross1 [19.8 MB] Get:31 http://localhost:3142/debian sid/main amd64 gcc-arm-linux-gnueabi amd64 4:14.2.0-1 [1452 B] Get:32 http://localhost:3142/debian sid/main amd64 linux-libc-dev-armel-cross all 6.11.2-1cross1 [2228 kB] Get:33 http://localhost:3142/debian sid/main amd64 libc6-dev-armel-cross all 2.40-3cross1 [1326 kB] Get:34 http://localhost:3142/debian sid/main amd64 libstdc++-14-dev-armel-cross all 14.2.0-6cross1 [2336 kB] Get:35 http://localhost:3142/debian sid/main amd64 g++-14-arm-linux-gnueabi amd64 14.2.0-6cross1 [11.4 MB] Get:36 http://localhost:3142/debian sid/main amd64 g++-arm-linux-gnueabi amd64 4:14.2.0-1 [1204 B] Get:37 http://localhost:3142/debian sid/main amd64 crossbuild-essential-armel all 12.12 [3552 B] Get:38 http://localhost:3142/debian sid/main amd64 d-shlibs all 0.107 [11.0 kB] Get:39 http://localhost:3142/debian sid/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get:40 http://localhost:3142/debian sid/main amd64 libtool all 2.4.7-7 [517 kB] Get:41 http://localhost:3142/debian sid/main amd64 dh-autoreconf all 20 [17.1 kB] Get:42 http://localhost:3142/debian sid/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:43 http://localhost:3142/debian sid/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get:44 http://localhost:3142/debian sid/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get:45 http://localhost:3142/debian sid/main amd64 libelf1t64 amd64 0.191-2 [188 kB] Get:46 http://localhost:3142/debian sid/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:47 http://localhost:3142/debian sid/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get:48 http://localhost:3142/debian sid/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get:49 http://localhost:3142/debian sid/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get:50 http://localhost:3142/debian sid/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:51 http://localhost:3142/debian sid/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:52 http://localhost:3142/debian sid/main amd64 debhelper all 13.20 [915 kB] Get:53 http://localhost:3142/debian sid/main amd64 libfakeroot amd64 1.36-1 [29.1 kB] Get:54 http://localhost:3142/debian sid/main amd64 fakeroot amd64 1.36-1 [75.1 kB] Get:55 http://localhost:3142/debian sid/main armel gcc-14-base armel 14.2.0-6 [46.7 kB] Get:56 http://localhost:3142/debian sid/main amd64 icu-devtools amd64 72.1-5 [207 kB] Get:57 http://localhost:3142/debian sid/main armel libgcc-s1 armel 14.2.0-6 [38.9 kB] Get:58 http://localhost:3142/debian sid/main armel libc6 armel 2.40-3 [2176 kB] Get:59 http://localhost:3142/debian sid/main armel libasan8 armel 14.2.0-6 [2546 kB] Get:60 http://localhost:3142/debian sid/main armel libatomic1 armel 14.2.0-6 [9504 B] Get:61 http://localhost:3142/debian sid/main armel libgomp1 armel 14.2.0-6 [113 kB] Get:62 http://localhost:3142/debian sid/main armel libstdc++6 armel 14.2.0-6 [593 kB] Get:63 http://localhost:3142/debian sid/main armel libubsan1 armel 14.2.0-6 [1035 kB] Get:64 http://localhost:3142/debian sid/main armel libgcc-14-dev armel 14.2.0-6 [762 kB] Get:65 http://localhost:3142/debian sid/main armel libcrypt1 armel 1:4.4.36-5 [97.0 kB] Get:66 http://localhost:3142/debian sid/main armel libcrypt-dev armel 1:4.4.36-5 [126 kB] Get:67 http://localhost:3142/debian sid/main armel libc6-dev armel 2.40-3 [1329 kB] Get:68 http://localhost:3142/debian sid/main armel libstdc++-14-dev armel 14.2.0-6 [2369 kB] Get:69 http://localhost:3142/debian sid/main armel libboost1.83-dev armel 1.83.0-3.2 [10.6 MB] Get:70 http://localhost:3142/debian sid/main armel libboost-atomic1.83.0 armel 1.83.0-3.2 [233 kB] Get:71 http://localhost:3142/debian sid/main armel libboost-atomic1.83-dev armel 1.83.0-3.2 [234 kB] Get:72 http://localhost:3142/debian sid/main armel libboost-filesystem1.83.0 armel 1.83.0-3.2 [270 kB] Get:73 http://localhost:3142/debian sid/main armel libboost-system1.83.0 armel 1.83.0-3.2 [230 kB] Get:74 http://localhost:3142/debian sid/main armel libboost-system1.83-dev armel 1.83.0-3.2 [231 kB] Get:75 http://localhost:3142/debian sid/main armel libboost-filesystem1.83-dev armel 1.83.0-3.2 [286 kB] Get:76 http://localhost:3142/debian sid/main armel libboost-filesystem-dev armel 1.83.0.2+b2 [3616 B] Get:77 http://localhost:3142/debian sid/main armel libboost-regex1.83.0 armel 1.83.0-3.2 [305 kB] Get:78 http://localhost:3142/debian sid/main armel libicu72 armel 72.1-5 [9037 kB] Get:79 http://localhost:3142/debian sid/main armel libicu-dev armel 72.1-5 [10.1 MB] Get:80 http://localhost:3142/debian sid/main armel libboost-regex1.83-dev armel 1.83.0-3.2 [334 kB] Get:81 http://localhost:3142/debian sid/main armel libbz2-1.0 armel 1.0.8-6 [36.3 kB] Get:82 http://localhost:3142/debian sid/main armel liblzma5 armel 5.6.2-2 [244 kB] Get:83 http://localhost:3142/debian sid/main armel libzstd1 armel 1.5.6+dfsg-1 [260 kB] Get:84 http://localhost:3142/debian sid/main armel zlib1g armel 1:1.3.dfsg+really1.3.1-1 [74.6 kB] Get:85 http://localhost:3142/debian sid/main armel libboost-iostreams1.83.0 armel 1.83.0-3.2 [249 kB] Get:86 http://localhost:3142/debian sid/main armel libboost-iostreams1.83-dev armel 1.83.0-3.2 [261 kB] Get:87 http://localhost:3142/debian sid/main armel libboost-iostreams-dev armel 1.83.0.2+b2 [3568 B] Get:88 http://localhost:3142/debian sid/main armel libboost-program-options1.83.0 armel 1.83.0-3.2 [323 kB] Get:89 http://localhost:3142/debian sid/main armel libboost-program-options1.83-dev armel 1.83.0-3.2 [367 kB] Get:90 http://localhost:3142/debian sid/main armel libboost-program-options-dev armel 1.83.0.2+b2 [3604 B] Get:91 http://localhost:3142/debian sid/main armel libgenome0 armel 1.3.11+svn20110227.4616-6+b1 [102 kB] Get:92 http://localhost:3142/debian sid/main armel libgenome-dev armel 1.3.11+svn20110227.4616-6+b1 [178 kB] Get:93 http://localhost:3142/debian sid/main armel libmuscle1 armel 3.7+4565-8 [203 kB] Get:94 http://localhost:3142/debian sid/main armel libmuscle-dev armel 3.7+4565-8 [258 kB] Get:95 http://localhost:3142/debian sid/main amd64 libpkgconf3 amd64 1.8.1-3 [36.2 kB] Get:96 http://localhost:3142/debian sid/main amd64 pkgconf-bin amd64 1.8.1-3 [29.9 kB] Get:97 http://localhost:3142/debian sid/main armel pkgconf armel 1.8.1-3 [26.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 123 MB in 1s (149 MB/s) Selecting previously unselected package sensible-utils. (Reading database ... 12969 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-9_amd64.deb ... Unpacking bsdextrautils (2.40.2-9) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package binutils-arm-linux-gnueabi. Preparing to unpack .../15-binutils-arm-linux-gnueabi_2.43.1-5_amd64.deb ... Unpacking binutils-arm-linux-gnueabi (2.43.1-5) ... Selecting previously unselected package gcc-14-arm-linux-gnueabi-base:amd64. Preparing to unpack .../16-gcc-14-arm-linux-gnueabi-base_14.2.0-6cross1_amd64.deb ... Unpacking gcc-14-arm-linux-gnueabi-base:amd64 (14.2.0-6cross1) ... Selecting previously unselected package cpp-14-arm-linux-gnueabi. Preparing to unpack .../17-cpp-14-arm-linux-gnueabi_14.2.0-6cross1_amd64.deb ... Unpacking cpp-14-arm-linux-gnueabi (14.2.0-6cross1) ... Selecting previously unselected package cpp-arm-linux-gnueabi. Preparing to unpack .../18-cpp-arm-linux-gnueabi_4%3a14.2.0-1_amd64.deb ... Unpacking cpp-arm-linux-gnueabi (4:14.2.0-1) ... Selecting previously unselected package gcc-14-cross-base-ports. Preparing to unpack .../19-gcc-14-cross-base-ports_14.2.0-6cross1_all.deb ... Unpacking gcc-14-cross-base-ports (14.2.0-6cross1) ... Selecting previously unselected package libc6-armel-cross. Preparing to unpack .../20-libc6-armel-cross_2.40-3cross1_all.deb ... Unpacking libc6-armel-cross (2.40-3cross1) ... Selecting previously unselected package libgcc-s1-armel-cross. Preparing to unpack .../21-libgcc-s1-armel-cross_14.2.0-6cross1_all.deb ... Unpacking libgcc-s1-armel-cross (14.2.0-6cross1) ... Selecting previously unselected package libgomp1-armel-cross. Preparing to unpack .../22-libgomp1-armel-cross_14.2.0-6cross1_all.deb ... Unpacking libgomp1-armel-cross (14.2.0-6cross1) ... Selecting previously unselected package libatomic1-armel-cross. Preparing to unpack .../23-libatomic1-armel-cross_14.2.0-6cross1_all.deb ... Unpacking libatomic1-armel-cross (14.2.0-6cross1) ... Selecting previously unselected package libasan8-armel-cross. Preparing to unpack .../24-libasan8-armel-cross_14.2.0-6cross1_all.deb ... Unpacking libasan8-armel-cross (14.2.0-6cross1) ... Selecting previously unselected package libstdc++6-armel-cross. Preparing to unpack .../25-libstdc++6-armel-cross_14.2.0-6cross1_all.deb ... Unpacking libstdc++6-armel-cross (14.2.0-6cross1) ... Selecting previously unselected package libubsan1-armel-cross. Preparing to unpack .../26-libubsan1-armel-cross_14.2.0-6cross1_all.deb ... Unpacking libubsan1-armel-cross (14.2.0-6cross1) ... Selecting previously unselected package libgcc-14-dev-armel-cross. Preparing to unpack .../27-libgcc-14-dev-armel-cross_14.2.0-6cross1_all.deb ... Unpacking libgcc-14-dev-armel-cross (14.2.0-6cross1) ... Selecting previously unselected package gcc-14-arm-linux-gnueabi. Preparing to unpack .../28-gcc-14-arm-linux-gnueabi_14.2.0-6cross1_amd64.deb ... Unpacking gcc-14-arm-linux-gnueabi (14.2.0-6cross1) ... Selecting previously unselected package gcc-arm-linux-gnueabi. Preparing to unpack .../29-gcc-arm-linux-gnueabi_4%3a14.2.0-1_amd64.deb ... Unpacking gcc-arm-linux-gnueabi (4:14.2.0-1) ... Selecting previously unselected package linux-libc-dev-armel-cross. Preparing to unpack .../30-linux-libc-dev-armel-cross_6.11.2-1cross1_all.deb ... Unpacking linux-libc-dev-armel-cross (6.11.2-1cross1) ... Selecting previously unselected package libc6-dev-armel-cross. Preparing to unpack .../31-libc6-dev-armel-cross_2.40-3cross1_all.deb ... Unpacking libc6-dev-armel-cross (2.40-3cross1) ... Selecting previously unselected package libstdc++-14-dev-armel-cross. Preparing to unpack .../32-libstdc++-14-dev-armel-cross_14.2.0-6cross1_all.deb ... Unpacking libstdc++-14-dev-armel-cross (14.2.0-6cross1) ... Selecting previously unselected package g++-14-arm-linux-gnueabi. Preparing to unpack .../33-g++-14-arm-linux-gnueabi_14.2.0-6cross1_amd64.deb ... Unpacking g++-14-arm-linux-gnueabi (14.2.0-6cross1) ... Selecting previously unselected package g++-arm-linux-gnueabi. Preparing to unpack .../34-g++-arm-linux-gnueabi_4%3a14.2.0-1_amd64.deb ... Unpacking g++-arm-linux-gnueabi (4:14.2.0-1) ... Selecting previously unselected package crossbuild-essential-armel. Preparing to unpack .../35-crossbuild-essential-armel_12.12_all.deb ... Unpacking crossbuild-essential-armel (12.12) ... Selecting previously unselected package d-shlibs. Preparing to unpack .../36-d-shlibs_0.107_all.deb ... Unpacking d-shlibs (0.107) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../37-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../38-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../39-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../40-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../41-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../42-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../43-libelf1t64_0.191-2_amd64.deb ... Unpacking libelf1t64:amd64 (0.191-2) ... Selecting previously unselected package dwz. Preparing to unpack .../44-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../45-libicu72_72.1-5_amd64.deb ... Unpacking libicu72:amd64 (72.1-5) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../46-libxml2_2.12.7+dfsg+really2.9.14-0.1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Selecting previously unselected package gettext. Preparing to unpack .../47-gettext_0.22.5-2_amd64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../48-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../49-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../50-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package libfakeroot:amd64. Preparing to unpack .../51-libfakeroot_1.36-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.36-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../52-fakeroot_1.36-1_amd64.deb ... Unpacking fakeroot (1.36-1) ... Selecting previously unselected package gcc-14-base:armel. Preparing to unpack .../53-gcc-14-base_14.2.0-6_armel.deb ... Unpacking gcc-14-base:armel (14.2.0-6) ... Selecting previously unselected package icu-devtools. Preparing to unpack .../54-icu-devtools_72.1-5_amd64.deb ... Unpacking icu-devtools (72.1-5) ... Selecting previously unselected package libgcc-s1:armel. Preparing to unpack .../55-libgcc-s1_14.2.0-6_armel.deb ... Unpacking libgcc-s1:armel (14.2.0-6) ... Selecting previously unselected package libc6:armel. Preparing to unpack .../56-libc6_2.40-3_armel.deb ... Unpacking libc6:armel (2.40-3) ... Selecting previously unselected package libasan8:armel. Preparing to unpack .../57-libasan8_14.2.0-6_armel.deb ... Unpacking libasan8:armel (14.2.0-6) ... Selecting previously unselected package libatomic1:armel. Preparing to unpack .../58-libatomic1_14.2.0-6_armel.deb ... Unpacking libatomic1:armel (14.2.0-6) ... Selecting previously unselected package libgomp1:armel. Preparing to unpack .../59-libgomp1_14.2.0-6_armel.deb ... Unpacking libgomp1:armel (14.2.0-6) ... Selecting previously unselected package libstdc++6:armel. Preparing to unpack .../60-libstdc++6_14.2.0-6_armel.deb ... Unpacking libstdc++6:armel (14.2.0-6) ... Selecting previously unselected package libubsan1:armel. Preparing to unpack .../61-libubsan1_14.2.0-6_armel.deb ... Unpacking libubsan1:armel (14.2.0-6) ... Selecting previously unselected package libgcc-14-dev:armel. Preparing to unpack .../62-libgcc-14-dev_14.2.0-6_armel.deb ... Unpacking libgcc-14-dev:armel (14.2.0-6) ... Selecting previously unselected package libcrypt1:armel. Preparing to unpack .../63-libcrypt1_1%3a4.4.36-5_armel.deb ... Unpacking libcrypt1:armel (1:4.4.36-5) ... Selecting previously unselected package libcrypt-dev:armel. Preparing to unpack .../64-libcrypt-dev_1%3a4.4.36-5_armel.deb ... Unpacking libcrypt-dev:armel (1:4.4.36-5) ... Selecting previously unselected package libc6-dev:armel. Preparing to unpack .../65-libc6-dev_2.40-3_armel.deb ... Unpacking libc6-dev:armel (2.40-3) ... Selecting previously unselected package libstdc++-14-dev:armel. Preparing to unpack .../66-libstdc++-14-dev_14.2.0-6_armel.deb ... Unpacking libstdc++-14-dev:armel (14.2.0-6) ... Selecting previously unselected package libboost1.83-dev:armel. Preparing to unpack .../67-libboost1.83-dev_1.83.0-3.2_armel.deb ... Unpacking libboost1.83-dev:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-atomic1.83.0:armel. Preparing to unpack .../68-libboost-atomic1.83.0_1.83.0-3.2_armel.deb ... Unpacking libboost-atomic1.83.0:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-atomic1.83-dev:armel. Preparing to unpack .../69-libboost-atomic1.83-dev_1.83.0-3.2_armel.deb ... Unpacking libboost-atomic1.83-dev:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-filesystem1.83.0:armel. Preparing to unpack .../70-libboost-filesystem1.83.0_1.83.0-3.2_armel.deb ... Unpacking libboost-filesystem1.83.0:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-system1.83.0:armel. Preparing to unpack .../71-libboost-system1.83.0_1.83.0-3.2_armel.deb ... Unpacking libboost-system1.83.0:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-system1.83-dev:armel. Preparing to unpack .../72-libboost-system1.83-dev_1.83.0-3.2_armel.deb ... Unpacking libboost-system1.83-dev:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-filesystem1.83-dev:armel. Preparing to unpack .../73-libboost-filesystem1.83-dev_1.83.0-3.2_armel.deb ... Unpacking libboost-filesystem1.83-dev:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-filesystem-dev:armel. Preparing to unpack .../74-libboost-filesystem-dev_1.83.0.2+b2_armel.deb ... Unpacking libboost-filesystem-dev:armel (1.83.0.2+b2) ... Selecting previously unselected package libboost-regex1.83.0:armel. Preparing to unpack .../75-libboost-regex1.83.0_1.83.0-3.2_armel.deb ... Unpacking libboost-regex1.83.0:armel (1.83.0-3.2) ... Selecting previously unselected package libicu72:armel. Preparing to unpack .../76-libicu72_72.1-5_armel.deb ... Unpacking libicu72:armel (72.1-5) ... Selecting previously unselected package libicu-dev:armel. Preparing to unpack .../77-libicu-dev_72.1-5_armel.deb ... Unpacking libicu-dev:armel (72.1-5) ... Selecting previously unselected package libboost-regex1.83-dev:armel. Preparing to unpack .../78-libboost-regex1.83-dev_1.83.0-3.2_armel.deb ... Unpacking libboost-regex1.83-dev:armel (1.83.0-3.2) ... Selecting previously unselected package libbz2-1.0:armel. Preparing to unpack .../79-libbz2-1.0_1.0.8-6_armel.deb ... Unpacking libbz2-1.0:armel (1.0.8-6) ... Selecting previously unselected package liblzma5:armel. Preparing to unpack .../80-liblzma5_5.6.2-2_armel.deb ... Unpacking liblzma5:armel (5.6.2-2) ... Selecting previously unselected package libzstd1:armel. Preparing to unpack .../81-libzstd1_1.5.6+dfsg-1_armel.deb ... Unpacking libzstd1:armel (1.5.6+dfsg-1) ... Selecting previously unselected package zlib1g:armel. Preparing to unpack .../82-zlib1g_1%3a1.3.dfsg+really1.3.1-1_armel.deb ... Unpacking zlib1g:armel (1:1.3.dfsg+really1.3.1-1) ... Selecting previously unselected package libboost-iostreams1.83.0:armel. Preparing to unpack .../83-libboost-iostreams1.83.0_1.83.0-3.2_armel.deb ... Unpacking libboost-iostreams1.83.0:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-iostreams1.83-dev:armel. Preparing to unpack .../84-libboost-iostreams1.83-dev_1.83.0-3.2_armel.deb ... Unpacking libboost-iostreams1.83-dev:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-iostreams-dev:armel. Preparing to unpack .../85-libboost-iostreams-dev_1.83.0.2+b2_armel.deb ... Unpacking libboost-iostreams-dev:armel (1.83.0.2+b2) ... Selecting previously unselected package libboost-program-options1.83.0:armel. Preparing to unpack .../86-libboost-program-options1.83.0_1.83.0-3.2_armel.deb ... Unpacking libboost-program-options1.83.0:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-program-options1.83-dev:armel. Preparing to unpack .../87-libboost-program-options1.83-dev_1.83.0-3.2_armel.deb ... Unpacking libboost-program-options1.83-dev:armel (1.83.0-3.2) ... Selecting previously unselected package libboost-program-options-dev:armel. Preparing to unpack .../88-libboost-program-options-dev_1.83.0.2+b2_armel.deb ... Unpacking libboost-program-options-dev:armel (1.83.0.2+b2) ... Selecting previously unselected package libgenome0:armel. Preparing to unpack .../89-libgenome0_1.3.11+svn20110227.4616-6+b1_armel.deb ... Unpacking libgenome0:armel (1.3.11+svn20110227.4616-6+b1) ... Selecting previously unselected package libgenome-dev:armel. Preparing to unpack .../90-libgenome-dev_1.3.11+svn20110227.4616-6+b1_armel.deb ... Unpacking libgenome-dev:armel (1.3.11+svn20110227.4616-6+b1) ... Selecting previously unselected package libmuscle1:armel. Preparing to unpack .../91-libmuscle1_3.7+4565-8_armel.deb ... Unpacking libmuscle1:armel (3.7+4565-8) ... Selecting previously unselected package libmuscle-dev:armel. Preparing to unpack .../92-libmuscle-dev_3.7+4565-8_armel.deb ... Unpacking libmuscle-dev:armel (3.7+4565-8) ... Selecting previously unselected package libpkgconf3:amd64. Preparing to unpack .../93-libpkgconf3_1.8.1-3_amd64.deb ... Unpacking libpkgconf3:amd64 (1.8.1-3) ... Selecting previously unselected package pkgconf-bin. Preparing to unpack .../94-pkgconf-bin_1.8.1-3_amd64.deb ... Unpacking pkgconf-bin (1.8.1-3) ... Selecting previously unselected package pkgconf:armel. Preparing to unpack .../95-pkgconf_1.8.1-3_armel.deb ... Unpacking pkgconf:armel (1.8.1-3) ... Selecting previously unselected package sbuild-build-depends-main-dummy:armel. Preparing to unpack .../96-sbuild-build-depends-main-dummy_0.invalid.0_armel.deb ... Unpacking sbuild-build-depends-main-dummy:armel (0.invalid.0) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up binutils-arm-linux-gnueabi (2.43.1-5) ... Setting up libicu72:amd64 (72.1-5) ... Setting up bsdextrautils (2.40.2-9) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up gcc-14-base:armel (14.2.0-6) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libboost-system1.83.0:armel (1.83.0-3.2) ... Setting up libmagic1t64:amd64 (1:5.45-3) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libfakeroot:amd64 (1.36-1) ... Setting up libelf1t64:amd64 (0.191-2) ... Setting up linux-libc-dev-armel-cross (6.11.2-1cross1) ... Setting up fakeroot (1.36-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up gcc-14-arm-linux-gnueabi-base:amd64 (14.2.0-6cross1) ... Setting up autotools-dev (20220109.1) ... Setting up libpkgconf3:amd64 (1.8.1-3) ... Setting up autopoint (0.22.5-2) ... Setting up icu-devtools (72.1-5) ... Setting up d-shlibs (0.107) ... Setting up pkgconf-bin (1.8.1-3) ... Setting up autoconf (2.72-3) ... Setting up libc6-armel-cross (2.40-3cross1) ... Setting up dwz (0.15-1+b1) ... Setting up gcc-14-cross-base-ports (14.2.0-6cross1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up libc6-dev-armel-cross (2.40-3cross1) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... 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 (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libgomp1-armel-cross (14.2.0-6cross1) ... Setting up libtool (2.4.7-7) ... Setting up cpp-14-arm-linux-gnueabi (14.2.0-6cross1) ... Setting up libgcc-s1-armel-cross (14.2.0-6cross1) ... Setting up libstdc++6-armel-cross (14.2.0-6cross1) ... Setting up libatomic1-armel-cross (14.2.0-6cross1) ... Setting up pkgconf:armel (1.8.1-3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up cpp-arm-linux-gnueabi (4:14.2.0-1) ... Setting up libubsan1-armel-cross (14.2.0-6cross1) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up libasan8-armel-cross (14.2.0-6cross1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libgcc-14-dev-armel-cross (14.2.0-6cross1) ... Setting up debhelper (13.20) ... Setting up gcc-14-arm-linux-gnueabi (14.2.0-6cross1) ... Setting up libstdc++-14-dev-armel-cross (14.2.0-6cross1) ... Setting up g++-14-arm-linux-gnueabi (14.2.0-6cross1) ... Setting up gcc-arm-linux-gnueabi (4:14.2.0-1) ... Setting up g++-arm-linux-gnueabi (4:14.2.0-1) ... Setting up crossbuild-essential-armel (12.12) ... Setting up libgcc-s1:armel (14.2.0-6) ... Setting up libc6:armel (2.40-3) ... Setting up libasan8:armel (14.2.0-6) ... Setting up libbz2-1.0:armel (1.0.8-6) ... Setting up libstdc++6:armel (14.2.0-6) ... Setting up libboost-program-options1.83.0:armel (1.83.0-3.2) ... Setting up libzstd1:armel (1.5.6+dfsg-1) ... Setting up libicu72:armel (72.1-5) ... Setting up libgenome0:armel (1.3.11+svn20110227.4616-6+b1) ... Setting up liblzma5:armel (5.6.2-2) ... Setting up libgenome-dev:armel (1.3.11+svn20110227.4616-6+b1) ... Setting up libboost-regex1.83.0:armel (1.83.0-3.2) ... Setting up zlib1g:armel (1:1.3.dfsg+really1.3.1-1) ... Setting up libcrypt1:armel (1:4.4.36-5) ... Setting up libboost-filesystem1.83.0:armel (1.83.0-3.2) ... Setting up libgomp1:armel (14.2.0-6) ... Setting up libboost-atomic1.83.0:armel (1.83.0-3.2) ... Setting up libboost-iostreams1.83.0:armel (1.83.0-3.2) ... Setting up libatomic1:armel (14.2.0-6) ... Setting up libubsan1:armel (14.2.0-6) ... Setting up libcrypt-dev:armel (1:4.4.36-5) ... Setting up libc6-dev:armel (2.40-3) ... Setting up libgcc-14-dev:armel (14.2.0-6) ... Setting up libstdc++-14-dev:armel (14.2.0-6) ... Setting up libicu-dev:armel (72.1-5) ... Setting up libboost1.83-dev:armel (1.83.0-3.2) ... Setting up libmuscle1:armel (3.7+4565-8) ... Setting up libboost-program-options1.83-dev:armel (1.83.0-3.2) ... Setting up libboost-program-options-dev:armel (1.83.0.2+b2) ... Setting up libmuscle-dev:armel (3.7+4565-8) ... Setting up libboost-regex1.83-dev:armel (1.83.0-3.2) ... Setting up libboost-atomic1.83-dev:armel (1.83.0-3.2) ... Setting up libboost-system1.83-dev:armel (1.83.0-3.2) ... Setting up libboost-iostreams1.83-dev:armel (1.83.0-3.2) ... Setting up libboost-filesystem1.83-dev:armel (1.83.0-3.2) ... Setting up libboost-iostreams-dev:armel (1.83.0.2+b2) ... Setting up libboost-filesystem-dev:armel (1.83.0.2+b2) ... Setting up sbuild-build-depends-main-dummy:armel (0.invalid.0) ... Processing triggers for libc-bin (2.40-3) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armel included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.1.0-23-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.99-1 (2024-07-15) amd64 (x86_64) Toolchain package versions: binutils_2.43.1-5 dpkg-dev_1.22.11 g++-14_14.2.0-6 gcc-14_14.2.0-6 libc6-dev_2.40-3 libstdc++-14-dev_14.2.0-6 libstdc++-14-dev-armel-cross_14.2.0-6cross1 libstdc++6_14.2.0-6 libstdc++6-armel-cross_14.2.0-6cross1 linux-libc-dev_6.11.2-1 Package versions: adduser_3.137 apt_2.9.8 autoconf_2.72-3 automake_1:1.16.5-1.3 autopoint_0.22.5-2 autotools-dev_20220109.1 base-files_13.5 base-passwd_3.6.4 bash_5.2.32-1+b1 binutils_2.43.1-5 binutils-arm-linux-gnueabi_2.43.1-5 binutils-common_2.43.1-5 binutils-x86-64-linux-gnu_2.43.1-5 bsdextrautils_2.40.2-9 bsdutils_1:2.40.2-9 build-essential_12.12 bzip2_1.0.8-6 coreutils_9.4-3.1 cpp_4:14.2.0-1 cpp-14_14.2.0-6 cpp-14-arm-linux-gnueabi_14.2.0-6cross1 cpp-14-x86-64-linux-gnu_14.2.0-6 cpp-arm-linux-gnueabi_4:14.2.0-1 cpp-x86-64-linux-gnu_4:14.2.0-1 crossbuild-essential-armel_12.12 d-shlibs_0.107 dash_0.5.12-9 debconf_1.5.87 debhelper_13.20 debian-archive-keyring_2023.4 debianutils_5.20 dh-autoreconf_20 dh-strip-nondeterminism_1.14.0-1 diffutils_1:3.10-1 dpkg_1.22.11 dpkg-dev_1.22.11 dwz_0.15-1+b1 fakeroot_1.36-1 file_1:5.45-3 findutils_4.10.0-3 g++_4:14.2.0-1 g++-14_14.2.0-6 g++-14-arm-linux-gnueabi_14.2.0-6cross1 g++-14-x86-64-linux-gnu_14.2.0-6 g++-arm-linux-gnueabi_4:14.2.0-1 g++-x86-64-linux-gnu_4:14.2.0-1 gcc_4:14.2.0-1 gcc-14_14.2.0-6 gcc-14-arm-linux-gnueabi_14.2.0-6cross1 gcc-14-arm-linux-gnueabi-base_14.2.0-6cross1 gcc-14-base_14.2.0-6 gcc-14-cross-base-ports_14.2.0-6cross1 gcc-14-x86-64-linux-gnu_14.2.0-6 gcc-arm-linux-gnueabi_4:14.2.0-1 gcc-x86-64-linux-gnu_4:14.2.0-1 gettext_0.22.5-2 gettext-base_0.22.5-2 gpgv_2.2.44-1 grep_3.11-4 groff-base_1.23.0-5 gzip_1.12-1.1 hostname_3.25 icu-devtools_72.1-5 init-system-helpers_1.67 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-2 libapt-pkg6.0t64_2.9.8 libarchive-zip-perl_1.68-1 libasan8_14.2.0-6 libasan8-armel-cross_14.2.0-6cross1 libatomic1_14.2.0-6 libatomic1-armel-cross_14.2.0-6cross1 libattr1_1:2.5.2-2 libaudit-common_1:4.0.1-1 libaudit1_1:4.0.1-1 libbinutils_2.43.1-5 libblkid1_2.40.2-9 libboost-atomic1.83-dev_1.83.0-3.2 libboost-atomic1.83.0_1.83.0-3.2 libboost-filesystem-dev_1.83.0.2+b2 libboost-filesystem1.83-dev_1.83.0-3.2 libboost-filesystem1.83.0_1.83.0-3.2 libboost-iostreams-dev_1.83.0.2+b2 libboost-iostreams1.83-dev_1.83.0-3.2 libboost-iostreams1.83.0_1.83.0-3.2 libboost-program-options-dev_1.83.0.2+b2 libboost-program-options1.83-dev_1.83.0-3.2 libboost-program-options1.83.0_1.83.0-3.2 libboost-regex1.83-dev_1.83.0-3.2 libboost-regex1.83.0_1.83.0-3.2 libboost-system1.83-dev_1.83.0-3.2 libboost-system1.83.0_1.83.0-3.2 libboost1.83-dev_1.83.0-3.2 libbsd0_0.12.2-2 libbz2-1.0_1.0.8-6 libc-bin_2.40-3 libc-dev-bin_2.40-3 libc6_2.40-3 libc6-armel-cross_2.40-3cross1 libc6-dev_2.40-3 libc6-dev-armel-cross_2.40-3cross1 libcap-ng0_0.8.5-2 libcap2_1:2.66-5 libcc1-0_14.2.0-6 libcrypt-dev_1:4.4.36-5 libcrypt1_1:4.4.36-5 libctf-nobfd0_2.43.1-5 libctf0_2.43.1-5 libdb5.3t64_5.3.28+dfsg2-8 libdebconfclient0_0.272 libdebhelper-perl_13.20 libdpkg-perl_1.22.11 libelf1t64_0.191-2 libfakeroot_1.36-1 libffi8_3.4.6-1 libfile-stripnondeterminism-perl_1.14.0-1 libgcc-14-dev_14.2.0-6 libgcc-14-dev-armel-cross_14.2.0-6cross1 libgcc-s1_14.2.0-6 libgcc-s1-armel-cross_14.2.0-6cross1 libgcrypt20_1.11.0-6 libgdbm-compat4t64_1.24-2 libgdbm6t64_1.24-2 libgenome-dev_1.3.11+svn20110227.4616-6+b1 libgenome0_1.3.11+svn20110227.4616-6+b1 libgmp10_2:6.3.0+dfsg-2+b1 libgnutls30t64_3.8.6-2 libgomp1_14.2.0-6 libgomp1-armel-cross_14.2.0-6cross1 libgpg-error0_1.50-4 libgprofng0_2.43.1-5 libhogweed6t64_3.10-1 libhwasan0_14.2.0-6 libicu-dev_72.1-5 libicu72_72.1-5 libidn2-0_2.3.7-2 libisl23_0.27-1 libitm1_14.2.0-6 libjansson4_2.14-2+b2 liblsan0_14.2.0-6 liblz4-1_1.9.4-3 liblzma5_5.6.2-2 libmagic-mgc_1:5.45-3 libmagic1t64_1:5.45-3 libmd0_1.1.0-2 libmount1_2.40.2-9 libmpc3_1.3.1-1+b2 libmpfr6_4.2.1-1+b1 libmuscle-dev_3.7+4565-8 libmuscle1_3.7+4565-8 libnettle8t64_3.10-1 libp11-kit0_0.25.5-2 libpam-modules_1.5.3-7 libpam-modules-bin_1.5.3-7 libpam-runtime_1.5.3-7 libpam0g_1.5.3-7 libpcre2-8-0_10.42-4+b1 libperl5.40_5.40.0-6 libpipeline1_1.5.8-1 libpkgconf3_1.8.1-3 libquadmath0_14.2.0-6 libseccomp2_2.5.5-1+b1 libselinux1_3.7-3 libsemanage-common_3.7-2 libsemanage2_3.7-2 libsepol2_3.7-1 libsframe1_2.43.1-5 libsmartcols1_2.40.2-9 libssl3t64_3.3.2-1 libstdc++-14-dev_14.2.0-6 libstdc++-14-dev-armel-cross_14.2.0-6cross1 libstdc++6_14.2.0-6 libstdc++6-armel-cross_14.2.0-6cross1 libsystemd0_256.7-1 libtasn1-6_4.19.0-3+b2 libtinfo6_6.5-2 libtool_2.4.7-7 libtsan2_14.2.0-6 libubsan1_14.2.0-6 libubsan1-armel-cross_14.2.0-6cross1 libuchardet0_0.0.8-1+b1 libudev1_256.7-1 libunistring5_1.2-1 libuuid1_2.40.2-9 libxml2_2.12.7+dfsg+really2.9.14-0.1 libxxhash0_0.8.2-2+b1 libzstd1_1.5.6+dfsg-1 linux-libc-dev_6.11.2-1 linux-libc-dev-armel-cross_6.11.2-1cross1 login_1:4.16.0-2+really2.40.2-9 login.defs_1:4.16.0-4 m4_1.4.19-4 make_4.3-4.1 man-db_2.13.0-1 mawk_1.3.4.20240905-1 mount_2.40.2-9 ncurses-base_6.5-2 ncurses-bin_6.5-2 openssl-provider-legacy_3.3.2-1 passwd_1:4.16.0-4 patch_2.7.6-7 perl_5.40.0-6 perl-base_5.40.0-6 perl-modules-5.40_5.40.0-6 pkgconf_1.8.1-3 pkgconf-bin_1.8.1-3 po-debconf_1.0.21+nmu1 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.24 sysvinit-utils_3.10-2 tar_1.35+dfsg-3 tzdata_2024b-3 usr-is-merged_39 util-linux_2.40.2-9 xz-utils_5.6.2-2 zlib1g_1:1.3.dfsg+really1.3.1-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libmems Binary: libmems-dev, libmems1t64 Architecture: any Version: 1.6.0+4725-11 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: http://sourceforge.net/p/mauve/code/HEAD/tree/libMems/trunk/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/libmems Vcs-Git: https://salsa.debian.org/med-team/libmems.git Build-Depends: dpkg-dev (>= 1.22.5), debhelper-compat (= 13), d-shlibs (>= 0.106~), pkgconf, libgenome-dev, libboost-filesystem-dev, libboost-iostreams-dev, libboost-program-options-dev, libmuscle-dev Package-List: libmems-dev deb libdevel optional arch=any libmems1t64 deb libs optional arch=any Checksums-Sha1: 717cab0cd606be4ebdb1b5990ee89a85d8d6c39b 236796 libmems_1.6.0+4725.orig.tar.xz 715693b987b39edd983cfd6b32600a06a75ecf58 10308 libmems_1.6.0+4725-11.debian.tar.xz Checksums-Sha256: 67265e1eb1b85a04533be431b906cc8d4773c799fb1a7809b346209380c41e91 236796 libmems_1.6.0+4725.orig.tar.xz cafcc6b065f7d2d06a3a428092b4d5c537271a4c95e70c36d3407153e3d2c5aa 10308 libmems_1.6.0+4725-11.debian.tar.xz Files: a3f12384cfcf888f01b39f562024d5e8 236796 libmems_1.6.0+4725.orig.tar.xz 03369d2208e843a03cd3a35f79971660 10308 libmems_1.6.0+4725-11.debian.tar.xz Dgit: 2421fa3bfc8b3df7e1cd7d5d8679b621bab7aa9f debian archive/debian/1.6.0+4725-11 https://git.dgit.debian.org/libmems -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmaYFKQUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdoO0w/7BnPAX3Vmu92+lOwGAKbtSO57lDZv bRnrAZ+1U3xhbIzII7MdAoHLmtY/GJtyuL6QP2zBRvvq20D9AfSCv1xsNkeLrGpb 2Ehe2s/8vL2OJQBj3r/9XwdpxdmV/AI/FOsqtC9Nw42tXQr2qh8k78ZNf6WNhdGV ES81ntsiD3sEioigyaZtPILVXONMf0p0Y1KoVjCoIYn5y7EB6UyK31IOxKrE/0Qs otpbovLQ7aedE/xtNB/jSHd3V99edfdJ1kZCMNeVQymebN9SJJf/Yd+dEHrbDdzd brCUVsvo1KK/+dH8htlKL+o7GzFWwAkpjJYgd5QNvhef7e5Aie6UsiCNREeDtjiy LxcZ8R2w+BEEiiTjeRj/XMPD28tebfb+YCVhGcuPqyAof0kAVk5ylHrQ+VQQe5mw zbXRPOuLxvJqrcUboK1KEfr6f5B0h3GvG/s2nUfQuTs5HGrlpwtdvKnLEX6PyKOr gHukc+isfUUFO9ul08K7AZF5wuT30eIepYDnQgSsCrlrxsjn0prxdMu50RLUEAEJ 9YIccPT0IkqTFnOgxWHzf09J2tbC3SntWR6UW+RgqdSnumdsdRu8oyNwRlF6QmDu XyCNVEMSj3n2ZlPIO2Zh6DpxjhPmBdY+DuUyDmAeyBg+cGNv9uRhHbBo2v+s88MW 7GhD60LXrlXxctQ= =S1xI -----END PGP SIGNATURE----- gpgv: Signature made Wed Jul 17 18:59:48 2024 UTC gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./libmems_1.6.0+4725-11.dsc: no acceptable signature found dpkg-source: info: extracting libmems in /<> dpkg-source: info: unpacking libmems_1.6.0+4725.orig.tar.xz dpkg-source: info: unpacking libmems_1.6.0+4725-11.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 01_fix_ctors.patch dpkg-source: info: applying 02_fix_a_Wformat.patch dpkg-source: info: applying pkg-config-directive.patch dpkg-source: info: applying 03_update_boost_m4_to_git_d9ff75.patch dpkg-source: info: applying 04_add_dependend_libs_to_link_command.patch dpkg-source: info: applying 05_gcc-6.patch dpkg-source: info: applying boost1.62.patch dpkg-source: info: applying drop-version-number.patch dpkg-source: info: applying fix-system.patch dpkg-source: info: applying gcc-14.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.armel DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=crossqa OLDPWD=/home/crossqa PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SBUILD_CONFIG=/tmp/tmp.NNj9AkB1rb/sbuild.conf SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=sid-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1000 SCHROOT_GROUP=crossqa SCHROOT_SESSION_ID=sid-amd64-sbuild-d64a9cd0-7626-4f0d-9d36-82f22fdfe0c5 SCHROOT_UID=1000 SCHROOT_USER=crossqa SHELL=/bin/sh USER=crossqa XDG_SESSION_CLASS=user dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -aarmel -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package libmems dpkg-buildpackage: info: source version 1.6.0+4725-11 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-architecture: warning: specified GNU system type arm-linux-gnueabi does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture armel debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'config'. libtoolize: copying file 'config/ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' configure.ac:54: warning: AM_INIT_AUTOMAKE: two- and three-arguments forms are deprecated. ./lib/autoconf/general.m4:2434: AC_DIAGNOSE is expanded from... aclocal.m4:429: AM_INIT_AUTOMAKE is expanded from... configure.ac:54: the top level configure.ac:66: warning: The macro 'AM_PROG_LIBTOOL' is obsolete. configure.ac:66: You should run autoupdate. m4/libtool.m4:101: AM_PROG_LIBTOOL is expanded from... configure.ac:66: the top level configure.ac:70: warning: The macro 'AC_HEADER_STDC' is obsolete. configure.ac:70: You should run autoupdate. ./lib/autoconf/headers.m4:663: AC_HEADER_STDC is expanded from... configure.ac:70: the top level configure.ac:92: warning: The macro 'AC_LANG_CPLUSPLUS' is obsolete. configure.ac:92: You should run autoupdate. ./lib/autoconf/c.m4:270: AC_LANG_CPLUSPLUS is expanded from... lib/m4sugar/m4sh.m4:690: _AS_IF_ELSE is expanded from... lib/m4sugar/m4sh.m4:697: AS_IF is expanded from... ./lib/autoconf/general.m4:2249: AC_CACHE_VAL is expanded from... ./lib/autoconf/general.m4:2270: AC_CACHE_CHECK is expanded from... m4/ac_cxx_namespaces.m4:12: AC_CXX_NAMESPACES is expanded from... configure.ac:92: the top level configure.ac:92: warning: The macro 'AC_TRY_COMPILE' is obsolete. configure.ac:92: You should run autoupdate. ./lib/autoconf/general.m4:2845: AC_TRY_COMPILE is expanded from... lib/m4sugar/m4sh.m4:690: _AS_IF_ELSE is expanded from... lib/m4sugar/m4sh.m4:697: AS_IF is expanded from... ./lib/autoconf/general.m4:2249: AC_CACHE_VAL is expanded from... ./lib/autoconf/general.m4:2270: AC_CACHE_CHECK is expanded from... m4/ac_cxx_namespaces.m4:12: AC_CXX_NAMESPACES is expanded from... configure.ac:92: the top level configure.ac:122: warning: 'AM_CONFIG_HEADER': this macro is obsolete. configure.ac:122: You should use the 'AC_CONFIG_HEADERS' macro instead. ./lib/autoconf/general.m4:2434: AC_DIAGNOSE is expanded from... aclocal.m4:745: AM_CONFIG_HEADER is expanded from... configure.ac:122: the top level configure.ac:128: warning: The macro 'AC_HEADER_TIME' is obsolete. configure.ac:128: You should run autoupdate. ./lib/autoconf/headers.m4:702: AC_HEADER_TIME is expanded from... configure.ac:128: the top level configure.ac:131: warning: The macro 'AC_PROG_GCC_TRADITIONAL' is obsolete. configure.ac:131: You should run autoupdate. ./lib/autoconf/c.m4:1676: AC_PROG_GCC_TRADITIONAL is expanded from... configure.ac:131: the top level configure.ac:136: warning: AC_OUTPUT should be used without arguments. configure.ac:136: You should run autoupdate. configure.ac:54: warning: AM_INIT_AUTOMAKE: two- and three-arguments forms are deprecated. For more info, see: configure.ac:54: https://www.gnu.org/software/automake/manual/automake.html#Modernize-AM_005fINIT_005fAUTOMAKE-invocation configure.ac:66: installing 'config/compile' configure.ac:66: installing 'config/config.guess' configure.ac:66: installing 'config/config.sub' configure.ac:54: installing 'config/install-sh' configure.ac:54: installing 'config/missing' libMems/Makefile.am:48: warning: source file 'HomologyHMM/algebras.cc' is in a subdirectory, libMems/Makefile.am:48: but option 'subdir-objects' is disabled automake: warning: possible forward-incompatibility. automake: At least one source file is in a subdirectory, but the 'subdir-objects' automake: automake option hasn't been enabled. For now, the corresponding output automake: object file(s) will be placed in the top-level directory. However, this automake: behavior may change in a future Automake major version, with object automake: files being placed in the same subdirectory as the corresponding sources. automake: You are advised to start using 'subdir-objects' option throughout your automake: project, to avoid future incompatibilities. libMems/Makefile.am:48: warning: source file 'HomologyHMM/homology.cc' is in a subdirectory, libMems/Makefile.am:48: but option 'subdir-objects' is disabled libMems/Makefile.am:48: warning: source file 'HomologyHMM/homologymain.cc' is in a subdirectory, libMems/Makefile.am:48: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/asyncio.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/alinuxaio.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/aPOSIXaio.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/alibc.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/awin32aio.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/buffer.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/util.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/sorting.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/dmsort.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/timing.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am:51: warning: source file 'dmSML/sml.c' is in a subdirectory, libMems/Makefile.am:51: but option 'subdir-objects' is disabled libMems/Makefile.am: installing 'config/depcomp' dh_auto_configure -a ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabi --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --host=arm-linux-gnueabi checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for arm-linux-gnueabi-strip... arm-linux-gnueabi-strip checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for arm-linux-gnueabi-g++... arm-linux-gnueabi-g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... yes checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether arm-linux-gnueabi-g++ accepts -g... yes checking for arm-linux-gnueabi-g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of arm-linux-gnueabi-g++... none checking whether ln -s works... yes checking build system type... x86_64-pc-linux-gnu checking host system type... arm-unknown-linux-gnueabi checking how to print strings... printf checking for arm-linux-gnueabi-gcc... arm-linux-gnueabi-gcc checking whether the compiler supports GNU C... yes checking whether arm-linux-gnueabi-gcc accepts -g... yes checking for arm-linux-gnueabi-gcc option to enable C11 features... none needed checking whether arm-linux-gnueabi-gcc understands -c and -o together... yes checking dependency style of arm-linux-gnueabi-gcc... none checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for fgrep... /usr/bin/grep -F checking for ld used by arm-linux-gnueabi-gcc... /usr/arm-linux-gnueabi/bin/ld checking if the linker (/usr/arm-linux-gnueabi/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/arm-linux-gnueabi-nm -B checking the name lister (/usr/bin/arm-linux-gnueabi-nm -B) interface... BSD nm checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-pc-linux-gnu file names to arm-unknown-linux-gnueabi format... func_convert_file_noop checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/arm-linux-gnueabi/bin/ld option to reload object files... -r checking for arm-linux-gnueabi-file... no checking for file... file configure: WARNING: using cross tools not prefixed with host triplet checking for arm-linux-gnueabi-objdump... arm-linux-gnueabi-objdump checking how to recognize dependent libraries... pass_all checking for arm-linux-gnueabi-dlltool... no checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for arm-linux-gnueabi-ar... arm-linux-gnueabi-ar checking for archiver @FILE support... @ checking for arm-linux-gnueabi-strip... (cached) arm-linux-gnueabi-strip checking for arm-linux-gnueabi-ranlib... arm-linux-gnueabi-ranlib checking command to parse /usr/bin/arm-linux-gnueabi-nm -B output from arm-linux-gnueabi-gcc object... ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for arm-linux-gnueabi-mt... no checking for mt... no checking if : is a manifest tool... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for sys/time.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if arm-linux-gnueabi-gcc supports -fno-rtti -fno-exceptions... no checking for arm-linux-gnueabi-gcc option to produce PIC... -fPIC -DPIC checking if arm-linux-gnueabi-gcc PIC flag -fPIC -DPIC works... yes checking if arm-linux-gnueabi-gcc static flag -static works... yes checking if arm-linux-gnueabi-gcc supports -c -o file.o... yes checking if arm-linux-gnueabi-gcc supports -c -o file.o... (cached) yes checking whether the arm-linux-gnueabi-gcc linker (/usr/arm-linux-gnueabi/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking how to run the C++ preprocessor... arm-linux-gnueabi-g++ -E checking for ld used by arm-linux-gnueabi-g++... /usr/arm-linux-gnueabi/bin/ld checking if the linker (/usr/arm-linux-gnueabi/bin/ld) is GNU ld... yes checking whether the arm-linux-gnueabi-g++ linker (/usr/arm-linux-gnueabi/bin/ld) supports shared libraries... yes checking for arm-linux-gnueabi-g++ option to produce PIC... -fPIC -DPIC checking if arm-linux-gnueabi-g++ PIC flag -fPIC -DPIC works... yes checking if arm-linux-gnueabi-g++ static flag -static works... yes checking if arm-linux-gnueabi-g++ supports -c -o file.o... yes checking if arm-linux-gnueabi-g++ supports -c -o file.o... (cached) yes checking whether the arm-linux-gnueabi-g++ linker (/usr/arm-linux-gnueabi/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for arm-linux-gnueabi-gcc option to enable large file support... none needed checking for egrep... (cached) /usr/bin/grep -E checking for Boost headers version >= 1.34.0... yes checking for Boost's header version... 1_83 checking whether the compiler implements namespaces... yes checking for the toolset name used by Boost for arm-linux-gnueabi-g++... configure: WARNING: could not figure out which toolset name to use for arm-linux-gnueabi-g++ checking for boost/system/error_code.hpp... yes checking for the Boost system library... yes checking for boost/filesystem/path.hpp... yes checking for the Boost filesystem library... (cached) yes checking for boost/program_options.hpp... yes checking for the Boost program_options library... (cached) yes checking for boost/iostreams/device/file_descriptor.hpp... yes checking for the Boost iostreams library... (cached) yes checking for arm-linux-gnueabi-pkg-config... /usr/bin/arm-linux-gnueabi-pkg-config checking pkg-config is at least version 0.9.0... yes checking for DEPS... yes checking for sys/types.h... (cached) yes checking for sys/aio.h... no checking for aio.h... yes checking for features.h... yes checking for pthread_mutex_unlock in -lpthread... yes checking for aio_write in -lrt... yes checking for arm-linux-gnueabi-doxygen... no checking for doxygen... no configure: WARNING: doxygen not found - will not generate any doxygen documentation checking for arm-linux-gnueabi-perl... no checking for perl... /usr/bin/perl checking for an ANSI C-conforming const... yes checking for inline... inline checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating libMems/Makefile config.status: creating libMems.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands dh_auto_build -a make -j1 make[1]: Entering directory '/<>' make all-recursive make[2]: Entering directory '/<>' Making all in libMems make[3]: Entering directory '/<>/libMems' /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o RepeatHash.lo RepeatHash.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c RepeatHash.cpp -fPIC -DPIC -o .libs/RepeatHash.o In file included from ../libMems/MatchList.h:25, from ../libMems/MatchFinder.h:18, from ../libMems/MemHash.h:20, from ../libMems/RepeatHash.h:16, from RepeatHash.cpp:13: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c RepeatHash.cpp -o RepeatHash.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o DNAFileSML.lo DNAFileSML.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c DNAFileSML.cpp -fPIC -DPIC -o .libs/DNAFileSML.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c DNAFileSML.cpp -o DNAFileSML.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o MatchFinder.lo MatchFinder.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MatchFinder.cpp -fPIC -DPIC -o .libs/MatchFinder.o In file included from ../libMems/MatchList.h:25, from ../libMems/MatchFinder.h:18, from MatchFinder.cpp:13: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MatchFinder.cpp -o MatchFinder.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o DNAMemorySML.lo DNAMemorySML.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c DNAMemorySML.cpp -fPIC -DPIC -o .libs/DNAMemorySML.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c DNAMemorySML.cpp -o DNAMemorySML.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o MemorySML.lo MemorySML.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MemorySML.cpp -fPIC -DPIC -o .libs/MemorySML.o In file included from /usr/arm-linux-gnueabi/include/c++/14/algorithm:61, from MemorySML.cpp:14: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1750:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1750 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:61: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = mems::bmer; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(const mems::bmer&, const mems::bmer&)]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'virtual void mems::MemorySML::Create(const genome::gnSequence&, uint64)' at MemorySML.cpp:54:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(const mems::bmer&, const mems::bmer&)]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'virtual void mems::MemorySML::Create(const genome::gnSequence&, uint64)' at MemorySML.cpp:54:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MemorySML.cpp -o MemorySML.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o SortedMerList.lo SortedMerList.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c SortedMerList.cpp -fPIC -DPIC -o .libs/SortedMerList.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c SortedMerList.cpp -o SortedMerList.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o FileSML.lo FileSML.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c FileSML.cpp -fPIC -DPIC -o .libs/FileSML.o In file included from ../libMems/MatchList.h:25, from ../libMems/Aligner.h:19, from FileSML.cpp:12: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/algorithm:61, from /usr/include/boost/iterator/iterator_concepts.hpp:26, from /usr/include/boost/range/concepts.hpp:20, from /usr/include/boost/range/size_type.hpp:20, from /usr/include/boost/range/size.hpp:21, from /usr/include/boost/range/functions.hpp:20, from /usr/include/boost/range/iterator_range_core.hpp:38, from /usr/include/boost/range/iterator_range.hpp:13, from /usr/include/boost/iostreams/traits.hpp:38, from /usr/include/boost/iostreams/detail/dispatch.hpp:17, from /usr/include/boost/iostreams/flush.hpp:17, from /usr/include/boost/iostreams/close.hpp:18, from /usr/include/boost/iostreams/device/mapped_file.hpp:20, from ../libMems/FileSML.h:22, from FileSML.cpp:10: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1750:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1750 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:61: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = mems::bmer; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(const mems::bmer&, const mems::bmer&)]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'virtual void mems::FileSML::Merge(mems::SortedMerList&, mems::SortedMerList&)' at FileSML.cpp:591:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(const mems::bmer&, const mems::bmer&)]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'virtual void mems::FileSML::Merge(mems::SortedMerList&, mems::SortedMerList&)' at FileSML.cpp:591:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(const mems::bmer&, const mems::bmer&)]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'virtual void mems::FileSML::Merge(mems::SortedMerList&, mems::SortedMerList&)' at FileSML.cpp:656:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(const mems::bmer&, const mems::bmer&)]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'virtual void mems::FileSML::Merge(mems::SortedMerList&, mems::SortedMerList&)' at FileSML.cpp:656:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(const mems::bmer&, const mems::bmer&)]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'virtual void mems::FileSML::Create(const genome::gnSequence&, uint64)' at FileSML.cpp:344:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = bool (*)(const mems::bmer&, const mems::bmer&)]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'virtual void mems::FileSML::Create(const genome::gnSequence&, uint64)' at FileSML.cpp:344:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c FileSML.cpp -o FileSML.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o MemHash.lo MemHash.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MemHash.cpp -fPIC -DPIC -o .libs/MemHash.o In file included from ../libMems/MatchList.h:25, from ../libMems/MatchFinder.h:18, from ../libMems/MemHash.h:20, from MemHash.cpp:13: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MemHash.cpp -o MemHash.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o MatchHashEntry.lo MatchHashEntry.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MatchHashEntry.cpp -fPIC -DPIC -o .libs/MatchHashEntry.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MatchHashEntry.cpp -o MatchHashEntry.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Interval.lo Interval.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c Interval.cpp -fPIC -DPIC -o .libs/Interval.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c Interval.cpp -o Interval.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o IntervalList.lo IntervalList.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c IntervalList.cpp -fPIC -DPIC -o .libs/IntervalList.o In file included from ../libMems/MatchList.h:25, from ../libMems/MatchFinder.h:18, from ../libMems/MemHash.h:20, from ../libMems/IntervalList.h:23, from IntervalList.cpp:13: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c IntervalList.cpp -o IntervalList.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o twister.lo twister.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c twister.c -fPIC -DPIC -o .libs/twister.o libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c twister.c -o twister.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o gnAlignedSequences.lo gnAlignedSequences.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c gnAlignedSequences.cpp -fPIC -DPIC -o .libs/gnAlignedSequences.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c gnAlignedSequences.cpp -o gnAlignedSequences.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o MatchList.lo MatchList.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MatchList.cpp -fPIC -DPIC -o .libs/MatchList.o In file included from ../libMems/MatchList.h:25, from MatchList.cpp:13: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MatchList.cpp -o MatchList.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Aligner.lo Aligner.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c Aligner.cpp -fPIC -DPIC -o .libs/Aligner.o In file included from /usr/arm-linux-gnueabi/include/c++/14/ext/hash_map:60, from ../libMems/HomologyHMM/dptables.h:43, from ../libMems/HomologyHMM/homology.h:27, from ../libMems/Islands.h:25, from Aligner.cpp:10: /usr/arm-linux-gnueabi/include/c++/14/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ In file included from ../libMems/MatchList.h:25, from ../libMems/Aligner.h:19, from Aligner.cpp:9: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ In file included from ../libMems/HomologyHMM/homology.h:28: ../libMems/HomologyHMM/algebras.h: In function 'BFloat double2bfloat(double)': ../libMems/HomologyHMM/algebras.h:190:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 190 | register BFloat a( 0.0, 0 ); | ^ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_product(const BFloat&, const BFloat&)': ../libMems/HomologyHMM/algebras.h:209:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 209 | register BFloat sf(a.f*b.f,a.e+b.e); | ^~ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_double_product(const BFloat&, double)': ../libMems/HomologyHMM/algebras.h:216:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 216 | register double mantisse = a.f*b; | ^~~~~~~~ ../libMems/HomologyHMM/algebras.h: In function 'void bfloat_pr_double_product_accum(BFloat&, double)': ../libMems/HomologyHMM/algebras.h:229:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 229 | register double mantisse = a.f*b; | ^~~~~~~~ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_quotient(const BFloat&, const BFloat&)': ../libMems/HomologyHMM/algebras.h:236:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 236 | register BFloat sf(a.f/b.f, a.e-b.e); | ^~ In file included from /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:61, from /usr/arm-linux-gnueabi/include/c++/14/algorithm:61, from ../libMems/AbstractMatch.h:18, from ../libMems/SparseAbstractMatch.h:18, from ../libMems/GappedAlignment.h:18, from ../libMems/GappedAligner.h:17, from ../libMems/Aligner.h:18: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:72, from /usr/include/libGenome/gnGenomeSpec.h:21, from /usr/include/libGenome/gnSequence.h:27, from ../libMems/Aligner.h:16: /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc: In function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:181:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = mems::LCB; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:66: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:187:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:129:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1750:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1750 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:65: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::LCB*]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = mems::LCB; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBLeftComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v2(IntervalList&, std::vector >&, std::vector&)' at Aligner.cpp:683:7: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBLeftComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v2(IntervalList&, std::vector >&, std::vector&)' at Aligner.cpp:683:7: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBIDComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v2(IntervalList&, std::vector >&, std::vector&)' at Aligner.cpp:700:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBIDComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v2(IntervalList&, std::vector >&, std::vector&)' at Aligner.cpp:700:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In static member function 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::LCB*; bool _TrivialValueTypes = false]', inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::LCB*]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::LCB*; _Tp = mems::LCB]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:373:37, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = mems::LCB; _Alloc = std::allocator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:606:31, inlined from 'void mems::Aligner::consistencyCheck(uint, std::vector&, std::vector >*> >&, std::vector >&)' at Aligner.cpp:1586:26: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c Aligner.cpp -o Aligner.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Islands.lo Islands.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c Islands.cpp -fPIC -DPIC -o .libs/Islands.o In file included from /usr/arm-linux-gnueabi/include/c++/14/ext/hash_map:60, from ../libMems/HomologyHMM/dptables.h:43, from ../libMems/HomologyHMM/homology.h:27, from ../libMems/Islands.h:25, from Islands.cpp:13: /usr/arm-linux-gnueabi/include/c++/14/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ In file included from ../libMems/MatchList.h:25, from ../libMems/MatchFinder.h:18, from ../libMems/MemHash.h:20, from ../libMems/IntervalList.h:23, from ../libMems/Islands.h:18: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ In file included from ../libMems/HomologyHMM/homology.h:28: ../libMems/HomologyHMM/algebras.h: In function 'BFloat double2bfloat(double)': ../libMems/HomologyHMM/algebras.h:190:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 190 | register BFloat a( 0.0, 0 ); | ^ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_product(const BFloat&, const BFloat&)': ../libMems/HomologyHMM/algebras.h:209:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 209 | register BFloat sf(a.f*b.f,a.e+b.e); | ^~ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_double_product(const BFloat&, double)': ../libMems/HomologyHMM/algebras.h:216:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 216 | register double mantisse = a.f*b; | ^~~~~~~~ ../libMems/HomologyHMM/algebras.h: In function 'void bfloat_pr_double_product_accum(BFloat&, double)': ../libMems/HomologyHMM/algebras.h:229:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 229 | register double mantisse = a.f*b; | ^~~~~~~~ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_quotient(const BFloat&, const BFloat&)': ../libMems/HomologyHMM/algebras.h:236:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 236 | register BFloat sf(a.f/b.f, a.e-b.e); | ^~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:72, from /usr/include/libGenome/gnGenomeSpec.h:21, from /usr/include/libGenome/gnSequence.h:27, from ../libMems/Islands.h:16: /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc: In function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:181:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:66: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:129:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:187:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c Islands.cpp -o Islands.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o MaskedMemHash.lo MaskedMemHash.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MaskedMemHash.cpp -fPIC -DPIC -o .libs/MaskedMemHash.o In file included from ../libMems/MatchList.h:25, from ../libMems/MatchFinder.h:18, from ../libMems/MemHash.h:20, from ../libMems/MaskedMemHash.h:16, from MaskedMemHash.cpp:13: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MaskedMemHash.cpp -o MaskedMemHash.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o GappedAlignment.lo GappedAlignment.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c GappedAlignment.cpp -fPIC -DPIC -o .libs/GappedAlignment.o In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:72, from /usr/include/libGenome/gnGenomeSpec.h:21, from /usr/include/libGenome/gnSequence.h:27, from ../libMems/GappedAlignment.h:17, from GappedAlignment.cpp:13: /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc: In function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:181:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:66: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:187:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:129:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c GappedAlignment.cpp -o GappedAlignment.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o MuscleInterface.lo MuscleInterface.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MuscleInterface.cpp -fPIC -DPIC -o .libs/MuscleInterface.o In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:72, from ../libMems/Matrix.h:19, from ../libMems/NumericMatrix.h:16, from ../libMems/MuscleInterface.h:16, from MuscleInterface.cpp:13: /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc: In function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:181:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:66: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:129:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:187:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c MuscleInterface.cpp -o MuscleInterface.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o PhyloTree.lo PhyloTree.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c PhyloTree.cpp -fPIC -DPIC -o .libs/PhyloTree.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c PhyloTree.cpp -o PhyloTree.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o RepeatMatchList.lo RepeatMatchList.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c RepeatMatchList.cpp -fPIC -DPIC -o .libs/RepeatMatchList.o In file included from ../libMems/MatchList.h:25, from ../libMems/RepeatMatchList.h:21, from RepeatMatchList.cpp:13: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c RepeatMatchList.cpp -o RepeatMatchList.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o RepeatMatch.lo RepeatMatch.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c RepeatMatch.cpp -fPIC -DPIC -o .libs/RepeatMatch.o libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c RepeatMatch.cpp -o RepeatMatch.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Backbone.lo Backbone.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c Backbone.cpp -fPIC -DPIC -o .libs/Backbone.o In file included from /usr/arm-linux-gnueabi/include/c++/14/ext/hash_map:60, from ../libMems/HomologyHMM/dptables.h:43, from ../libMems/HomologyHMM/homology.h:27, from ../libMems/Islands.h:25, from ../libMems/ProgressiveAligner.h:21, from Backbone.cpp:13: /usr/arm-linux-gnueabi/include/c++/14/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ In file included from ../libMems/MatchList.h:25, from ../libMems/Aligner.h:19, from ../libMems/ProgressiveAligner.h:17: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ In file included from ../libMems/HomologyHMM/homology.h:28: ../libMems/HomologyHMM/algebras.h: In function 'BFloat double2bfloat(double)': ../libMems/HomologyHMM/algebras.h:190:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 190 | register BFloat a( 0.0, 0 ); | ^ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_product(const BFloat&, const BFloat&)': ../libMems/HomologyHMM/algebras.h:209:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 209 | register BFloat sf(a.f*b.f,a.e+b.e); | ^~ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_double_product(const BFloat&, double)': ../libMems/HomologyHMM/algebras.h:216:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 216 | register double mantisse = a.f*b; | ^~~~~~~~ ../libMems/HomologyHMM/algebras.h: In function 'void bfloat_pr_double_product_accum(BFloat&, double)': ../libMems/HomologyHMM/algebras.h:229:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 229 | register double mantisse = a.f*b; | ^~~~~~~~ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_quotient(const BFloat&, const BFloat&)': ../libMems/HomologyHMM/algebras.h:236:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 236 | register BFloat sf(a.f/b.f, a.e-b.e); | ^~ In file included from /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:61, from /usr/arm-linux-gnueabi/include/c++/14/algorithm:61, from ../libMems/AbstractMatch.h:18, from ../libMems/SparseAbstractMatch.h:18, from ../libMems/Interval.h:18, from ../libMems/SuperInterval.h:8, from ../libMems/ProgressiveAligner.h:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = long long unsigned int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:72, from ../libMems/AbstractMatch.h:17: /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc: In function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:181:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1812 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = mems::LCB; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::getBpList(MatchVector&, uint, std::vector&) [with MatchVector = std::vector*>]' at Backbone.cpp:41:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::getBpList(MatchVector&, uint, std::vector&) [with MatchVector = std::vector >*, std::allocator >*> >]' at Backbone.cpp:41:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:66: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:187:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:129:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1750:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1750 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = mems::LCB; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBLeftComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:292:12: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBLeftComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:292:12: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBIDComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:309:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBIDComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:309:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::IdentifyBreakpoints(MatchVector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:223:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c Backbone.cpp -o Backbone.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o PairwiseMatchFinder.lo PairwiseMatchFinder.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c PairwiseMatchFinder.cpp -fPIC -DPIC -o .libs/PairwiseMatchFinder.o In file included from ../libMems/MatchList.h:25, from ../libMems/MatchFinder.h:18, from ../libMems/MemHash.h:20, from ../libMems/PairwiseMatchFinder.h:16, from PairwiseMatchFinder.cpp:13: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c PairwiseMatchFinder.cpp -o PairwiseMatchFinder.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o ProgressiveAligner.lo ProgressiveAligner.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c ProgressiveAligner.cpp -fPIC -DPIC -o .libs/ProgressiveAligner.o In file included from /usr/arm-linux-gnueabi/include/c++/14/ext/hash_map:60, from ../libMems/HomologyHMM/dptables.h:43, from ../libMems/HomologyHMM/homology.h:27, from ../libMems/Islands.h:25, from ../libMems/ProgressiveAligner.h:21, from ProgressiveAligner.cpp:14: /usr/arm-linux-gnueabi/include/c++/14/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ In file included from ../libMems/MatchList.h:25, from ../libMems/Aligner.h:19, from ../libMems/ProgressiveAligner.h:17: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/operations.hpp:20, from ../libMems/Files.h:23: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ In file included from ../libMems/HomologyHMM/homology.h:28: ../libMems/HomologyHMM/algebras.h: In function 'BFloat double2bfloat(double)': ../libMems/HomologyHMM/algebras.h:190:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 190 | register BFloat a( 0.0, 0 ); | ^ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_product(const BFloat&, const BFloat&)': ../libMems/HomologyHMM/algebras.h:209:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 209 | register BFloat sf(a.f*b.f,a.e+b.e); | ^~ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_double_product(const BFloat&, double)': ../libMems/HomologyHMM/algebras.h:216:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 216 | register double mantisse = a.f*b; | ^~~~~~~~ ../libMems/HomologyHMM/algebras.h: In function 'void bfloat_pr_double_product_accum(BFloat&, double)': ../libMems/HomologyHMM/algebras.h:229:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 229 | register double mantisse = a.f*b; | ^~~~~~~~ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_quotient(const BFloat&, const BFloat&)': ../libMems/HomologyHMM/algebras.h:236:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 236 | register BFloat sf(a.f/b.f, a.e-b.e); | ^~ In file included from /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:61, from /usr/arm-linux-gnueabi/include/c++/14/algorithm:61, from ../libMems/AbstractMatch.h:18, from ../libMems/SparseAbstractMatch.h:18, from ../libMems/Interval.h:18, from ../libMems/SuperInterval.h:8, from ../libMems/ProgressiveAligner.h:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = long long unsigned int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = long long int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:72, from ../libMems/AbstractMatch.h:17: /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc: In function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator, iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:195:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 195 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:195:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function '_ForwardIterator std::__unique(_ForwardIterator, _ForwardIterator, _BinaryPredicate) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _BinaryPredicate = __gnu_cxx::__ops::_Iter_equal_to_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:857:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 857 | __unique(_ForwardIterator __first, _ForwardIterator __last, | ^~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:857:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc: In function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:181:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1812 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1812 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc: In function 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Tp = std::pair; _Alloc = std::allocator >]': /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:954:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 954 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:954:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:954:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1812 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = mems::LCB; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::applyAncestralBreakpoints(const std::vector&, std::vector&, uint, Manipulator&) [with T = AbstractMatch*; Manipulator = GenericMatchSeqManipulator<>]' at ProgressiveAligner.cpp:265:6: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:66: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:187:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:340:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 340 | __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last, | ^~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:340:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 In function 'void std::make_heap(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = mems::MoveScoreHeapComparator]', inlined from 'int64 mems::greedyBreakpointElimination_v4(std::vector&, std::vector&, BreakpointScorerType&, std::ostream*, size_t, size_t) [with BreakpointScorerType = SimpleBreakpointScorer]' at ../libMems/GreedyBreakpointElimination.h:695:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:413:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 413 | std::__make_heap(__first, __last, __cmp); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:413:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; = void; _Tp = std::pair; _Alloc = std::allocator >]', inlined from 'int64 mems::greedyBreakpointElimination_v4(std::vector&, std::vector&, BreakpointScorerType&, std::ostream*, size_t, size_t) [with BreakpointScorerType = SimpleBreakpointScorer]' at ../libMems/GreedyBreakpointElimination.h:727:21: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1488:26: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 1488 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1489 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1488:26: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 In function 'void std::make_heap(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = mems::MoveScoreHeapComparator]', inlined from 'double mems::greedySearch(SearchScorer&) [with SearchScorer = EvenFasterSumOfPairsBreakpointScorer]' at ../libMems/GreedyBreakpointElimination.h:794:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:413:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 413 | std::__make_heap(__first, __last, __cmp); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:129:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1750:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1750 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1812 | __final_insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1812:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:65: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::SuperInterval*]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In static member function 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::SuperInterval*; bool _TrivialValueTypes = false]', inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::SuperInterval*]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::SuperInterval*; _Tp = mems::SuperInterval]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:373:37, inlined from 'std::vector<_Tp, _Alloc>::pointer std::vector<_Tp, _Alloc>::_M_allocate_and_copy(size_type, _ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = mems::SuperInterval; _Alloc = std::allocator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1624:35, inlined from 'std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = mems::SuperInterval; _Alloc = std::allocator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:238:44: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In static member function 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::SuperInterval*; bool _TrivialValueTypes = false]', inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::SuperInterval*]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = mems::SuperInterval*; _Tp = mems::SuperInterval]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:373:37, inlined from 'std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = mems::SuperInterval; _Alloc = std::allocator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:606:31, inlined from 'mems::AlignmentTreeNode::AlignmentTreeNode(const mems::AlignmentTreeNode&)' at ../libMems/ProgressiveAligner.h:36:7: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::applyAncestralBreakpoints(const std::vector&, std::vector&, uint, Manipulator&) [with T = SuperInterval; Manipulator = SuperIntervalManipulator]' at ProgressiveAligner.cpp:265:6, inlined from 'void mems::ProgressiveAligner::recursiveApplyAncestralBreakpoints(node_id_t)' at ProgressiveAligner.cpp:543:29: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = mems::LCB; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBLeftComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = GenericMatchList >*>]' at ../libMems/GreedyBreakpointElimination.h:292:12: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBIDComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = GenericMatchList >*>]' at ../libMems/GreedyBreakpointElimination.h:309:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBLeftComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:292:12: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBIDComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:309:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBLeftComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector*>]' at ../libMems/GreedyBreakpointElimination.h:292:12: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBIDComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector*>]' at ../libMems/GreedyBreakpointElimination.h:309:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::IdentifyBreakpoints(MatchVector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:223:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function '_FIter std::unique(_FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator >]', inlined from 'void mems::IdentifyBreakpoints(MatchVector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:224:49: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:900:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 900 | return std::__unique(__first, __last, | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 901 | __gnu_cxx::__ops::__iter_equal_to_iter()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::IdentifyBreakpoints(MatchVector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:225:19: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1568:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1568 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::IdentifyBreakpoints(MatchVector&, std::vector&) [with MatchVector = GenericMatchList >*>]' at ../libMems/GreedyBreakpointElimination.h:223:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function '_FIter std::unique(_FIter, _FIter) [with _FIter = __gnu_cxx::__normal_iterator >]', inlined from 'void mems::IdentifyBreakpoints(MatchVector&, std::vector&) [with MatchVector = GenericMatchList >*>]' at ../libMems/GreedyBreakpointElimination.h:224:49: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:900:27: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 900 | return std::__unique(__first, __last, | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 901 | __gnu_cxx::__ops::__iter_equal_to_iter()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator, const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::IdentifyBreakpoints(MatchVector&, std::vector&) [with MatchVector = GenericMatchList >*>]' at ../libMems/GreedyBreakpointElimination.h:225:19: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1568:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1568 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::make_heap(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = mems::MoveScoreHeapComparator]', inlined from 'int64 mems::greedyBreakpointElimination_v4(std::vector&, std::vector&, BreakpointScorerType&, std::ostream*, size_t, size_t) [with BreakpointScorerType = GreedyRemovalScorer]' at ../libMems/GreedyBreakpointElimination.h:695:16, inlined from 'void mems::ProgressiveAligner::CreatePairwiseBPDistance(boost::multi_array&)' at ProgressiveAligner.cpp:3433:52: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:413:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 413 | std::__make_heap(__first, __last, __cmp); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:413:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; = void; _Tp = std::pair; _Alloc = std::allocator >]', inlined from 'int64 mems::greedyBreakpointElimination_v4(std::vector&, std::vector&, BreakpointScorerType&, std::ostream*, size_t, size_t) [with BreakpointScorerType = GreedyRemovalScorer]' at ../libMems/GreedyBreakpointElimination.h:727:21, inlined from 'void mems::ProgressiveAligner::CreatePairwiseBPDistance(boost::multi_array&)' at ProgressiveAligner.cpp:3433:52: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1488:26: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 1488 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1489 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1488:26: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::ProgressiveAligner::alignProfileToProfile(node_id_t, node_id_t, node_id_t)' at ProgressiveAligner.cpp:2477:14: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::ProgressiveAligner::alignProfileToProfile(node_id_t, node_id_t, node_id_t)' at ProgressiveAligner.cpp:2478:14: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:38: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | std::__final_insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c ProgressiveAligner.cpp -o ProgressiveAligner.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o SuperInterval.lo SuperInterval.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c SuperInterval.cpp -fPIC -DPIC -o .libs/SuperInterval.o In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:72, from ../libMems/AbstractMatch.h:17, from ../libMems/SparseAbstractMatch.h:18, from ../libMems/Interval.h:18, from ../libMems/SuperInterval.h:8, from SuperInterval.cpp:6: /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc: In function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:181:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 181 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:66: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:187:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::erase(const_iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator]', inlined from 'void mems::SparseAbstractMatch::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator; uintAlloc = std::allocator]' at ../libMems/SparseAbstractMatch.h:129:16: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1537:24: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1537 | { return _M_erase(begin() + (__position - cbegin())); } | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c SuperInterval.cpp -o SuperInterval.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o GreedyBreakpointElimination.lo GreedyBreakpointElimination.cpp libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c GreedyBreakpointElimination.cpp -fPIC -DPIC -o .libs/GreedyBreakpointElimination.o In file included from /usr/arm-linux-gnueabi/include/c++/14/ext/hash_map:60, from ../libMems/HomologyHMM/dptables.h:43, from ../libMems/HomologyHMM/homology.h:27, from ../libMems/Islands.h:25, from ../libMems/ProgressiveAligner.h:21, from GreedyBreakpointElimination.cpp:7: /usr/arm-linux-gnueabi/include/c++/14/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ In file included from ../libMems/SeedOccurrenceList.h:9, from ../libMems/GreedyBreakpointElimination.h:13, from GreedyBreakpointElimination.cpp:6: ../libMems/Files.h: In function 'std::string CreateTempFileName(const std::string&)': ../libMems/Files.h:82:31: warning: 'boost::filesystem::path boost::filesystem::path::branch_path() const' is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 82 | dir = path.branch_path().string(); | ~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem.hpp:16, from ../libMems/SeedOccurrenceList.h:7: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ ../libMems/Files.h:86:25: warning: 'boost::filesystem::path boost::filesystem::path::leaf() const' is deprecated: Use path::filename() instead [-Wdeprecated-declarations] 86 | name = path.leaf().string(); | ~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1127:10: note: declared here 1127 | path leaf() const { return filename(); } | ^~~~ In file included from ../libMems/HomologyHMM/homology.h:28: ../libMems/HomologyHMM/algebras.h: In function 'BFloat double2bfloat(double)': ../libMems/HomologyHMM/algebras.h:190:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 190 | register BFloat a( 0.0, 0 ); | ^ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_product(const BFloat&, const BFloat&)': ../libMems/HomologyHMM/algebras.h:209:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 209 | register BFloat sf(a.f*b.f,a.e+b.e); | ^~ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_double_product(const BFloat&, double)': ../libMems/HomologyHMM/algebras.h:216:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 216 | register double mantisse = a.f*b; | ^~~~~~~~ ../libMems/HomologyHMM/algebras.h: In function 'void bfloat_pr_double_product_accum(BFloat&, double)': ../libMems/HomologyHMM/algebras.h:229:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 229 | register double mantisse = a.f*b; | ^~~~~~~~ ../libMems/HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_quotient(const BFloat&, const BFloat&)': ../libMems/HomologyHMM/algebras.h:236:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 236 | register BFloat sf(a.f/b.f, a.e-b.e); | ^~ In file included from /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:61, from /usr/arm-linux-gnueabi/include/c++/14/algorithm:61, from ../libMems/AbstractMatch.h:18, from ../libMems/GreedyBreakpointElimination.h:8: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = long long unsigned int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = mems::LCB; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:72, from ../libMems/AbstractMatch.h:17: /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/arm-linux-gnueabi/include/c++/14/bits/vector.tcc:700:5: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 700 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1750:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1750 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1770 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1770:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/arm-linux-gnueabi/include/c++/14/vector:66: In member function 'void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'mems::EvenFasterSumOfPairsBreakpointScorer::EvenFasterSumOfPairsBreakpointScorer(double, double, boost::multi_array, boost::multi_array, std::vector*>, mems::PairwiseLCBMatrix&, std::vector&, std::vector&, boost::multi_array&, boost::multi_array&, size_t, size_t, size_t, size_t)' at GreedyBreakpointElimination.cpp:368:18: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_vector.h:1037:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1037 | _M_fill_insert(end(), __new_size - size(), __x); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = mems::LCB; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1876 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1876:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBLeftComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:292:12: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBLeftComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:292:12: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBIDComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:309:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator >; _Compare = mems::LCBIDComparator]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4804:18, inlined from 'void mems::computeLCBAdjacencies_v3(const std::vector&, std::vector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:309:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::IdentifyBreakpoints(MatchVector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:223:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1905 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1906 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1907 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1908:31, inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void mems::IdentifyBreakpoints(MatchVector&, std::vector&) [with MatchVector = std::vector]' at ../libMems/GreedyBreakpointElimination.h:223:11: /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabi/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c GreedyBreakpointElimination.cpp -o GreedyBreakpointElimination.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o algebras.lo `test -f 'HomologyHMM/algebras.cc' || echo './'`HomologyHMM/algebras.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c HomologyHMM/algebras.cc -fPIC -DPIC -o .libs/algebras.o In file included from HomologyHMM/algebras.cc:27: HomologyHMM/algebras.h: In function 'BFloat double2bfloat(double)': HomologyHMM/algebras.h:190:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 190 | register BFloat a( 0.0, 0 ); | ^ HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_product(const BFloat&, const BFloat&)': HomologyHMM/algebras.h:209:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 209 | register BFloat sf(a.f*b.f,a.e+b.e); | ^~ HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_double_product(const BFloat&, double)': HomologyHMM/algebras.h:216:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 216 | register double mantisse = a.f*b; | ^~~~~~~~ HomologyHMM/algebras.h: In function 'void bfloat_pr_double_product_accum(BFloat&, double)': HomologyHMM/algebras.h:229:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 229 | register double mantisse = a.f*b; | ^~~~~~~~ HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_quotient(const BFloat&, const BFloat&)': HomologyHMM/algebras.h:236:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 236 | register BFloat sf(a.f/b.f, a.e-b.e); | ^~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c HomologyHMM/algebras.cc -o algebras.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o homology.lo `test -f 'HomologyHMM/homology.cc' || echo './'`HomologyHMM/homology.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c HomologyHMM/homology.cc -fPIC -DPIC -o .libs/homology.o In file included from /usr/arm-linux-gnueabi/include/c++/14/ext/hash_map:60, from HomologyHMM/dptables.h:43, from HomologyHMM/homology.h:27, from HomologyHMM/homology.cc:24: /usr/arm-linux-gnueabi/include/c++/14/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ In file included from HomologyHMM/homology.h:28: HomologyHMM/algebras.h: In function 'BFloat double2bfloat(double)': HomologyHMM/algebras.h:190:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 190 | register BFloat a( 0.0, 0 ); | ^ HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_product(const BFloat&, const BFloat&)': HomologyHMM/algebras.h:209:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 209 | register BFloat sf(a.f*b.f,a.e+b.e); | ^~ HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_double_product(const BFloat&, double)': HomologyHMM/algebras.h:216:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 216 | register double mantisse = a.f*b; | ^~~~~~~~ HomologyHMM/algebras.h: In function 'void bfloat_pr_double_product_accum(BFloat&, double)': HomologyHMM/algebras.h:229:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 229 | register double mantisse = a.f*b; | ^~~~~~~~ HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_quotient(const BFloat&, const BFloat&)': HomologyHMM/algebras.h:236:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 236 | register BFloat sf(a.f/b.f, a.e-b.e); | ^~ HomologyHMM/homology.cc: In function 'Algebra Forward(HomologyDPTable**, Params, char*, int)': HomologyHMM/homology.cc:319:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 319 | register double iTempResult[1]; | ^~~~~~~~~~~ HomologyHMM/homology.cc:321:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 321 | register bfloat iTempProb[1]; | ^~~~~~~~~ HomologyHMM/homology.cc: In function 'Algebra Backward(HomologyBaumWelch&, HomologyDPTable*, HomologyDPTable**, Params, char*, int)': HomologyHMM/homology.cc:417:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 417 | register double iTempResult[1]; | ^~~~~~~~~~~ HomologyHMM/homology.cc:419:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 419 | register bfloat iTempProb[3]; | ^~~~~~~~~ HomologyHMM/homology.cc: In function 'Algebra Viterbi_recurse(HomologyDPTable**, Params, char*, int)': HomologyHMM/homology.cc:565:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 565 | register double iTempResult[1]; | ^~~~~~~~~~~ HomologyHMM/homology.cc:567:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 567 | register bfloat iTempProb[1]; | ^~~~~~~~~ HomologyHMM/homology.cc: In function 'Path& Viterbi_trace(HomologyDPTable*, Params, char*, int)': HomologyHMM/homology.cc:673:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 673 | register double iTempResult[1]; | ^~~~~~~~~~~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c HomologyHMM/homology.cc -o homology.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o homologymain.lo `test -f 'HomologyHMM/homologymain.cc' || echo './'`HomologyHMM/homologymain.cc libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c HomologyHMM/homologymain.cc -fPIC -DPIC -o .libs/homologymain.o In file included from /usr/arm-linux-gnueabi/include/c++/14/ext/hash_map:60, from HomologyHMM/dptables.h:43, from HomologyHMM/homology.h:27, from HomologyHMM/homologymain.cc:21: /usr/arm-linux-gnueabi/include/c++/14/backward/backward_warning.h:32:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. [-Wcpp] 32 | #warning \ | ^~~~~~~ In file included from HomologyHMM/homology.h:28: HomologyHMM/algebras.h: In function 'BFloat double2bfloat(double)': HomologyHMM/algebras.h:190:21: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 190 | register BFloat a( 0.0, 0 ); | ^ HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_product(const BFloat&, const BFloat&)': HomologyHMM/algebras.h:209:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 209 | register BFloat sf(a.f*b.f,a.e+b.e); | ^~ HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_double_product(const BFloat&, double)': HomologyHMM/algebras.h:216:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 216 | register double mantisse = a.f*b; | ^~~~~~~~ HomologyHMM/algebras.h: In function 'void bfloat_pr_double_product_accum(BFloat&, double)': HomologyHMM/algebras.h:229:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 229 | register double mantisse = a.f*b; | ^~~~~~~~ HomologyHMM/algebras.h: In function 'BFloat bfloat_pr_quotient(const BFloat&, const BFloat&)': HomologyHMM/algebras.h:236:19: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 236 | register BFloat sf(a.f/b.f, a.e-b.e); | ^~ libtool: compile: arm-linux-gnueabi-g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c HomologyHMM/homologymain.cc -o homologymain.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o asyncio.lo `test -f 'dmSML/asyncio.c' || echo './'`dmSML/asyncio.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/asyncio.c -fPIC -DPIC -o .libs/asyncio.o In file included from dmSML/asyncio.c:5: ../libMems/dmSML/asyncio.h:18:16: warning: "_LARGEFILE_SOURCE" redefined 18 | # define _LARGEFILE_SOURCE | ^~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/asyncio.c -o asyncio.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o alinuxaio.lo `test -f 'dmSML/alinuxaio.c' || echo './'`dmSML/alinuxaio.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/alinuxaio.c -fPIC -DPIC -o .libs/alinuxaio.o In file included from ../libMems/dmSML/alinuxaio.h:8, from dmSML/alinuxaio.c:5: ../libMems/dmSML/asyncio.h:18:16: warning: "_LARGEFILE_SOURCE" redefined 18 | # define _LARGEFILE_SOURCE | ^~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/alinuxaio.c -o alinuxaio.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o aPOSIXaio.lo `test -f 'dmSML/aPOSIXaio.c' || echo './'`dmSML/aPOSIXaio.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/aPOSIXaio.c -fPIC -DPIC -o .libs/aPOSIXaio.o In file included from ../libMems/dmSML/aPOSIXaio.h:8, from dmSML/aPOSIXaio.c:5: ../libMems/dmSML/asyncio.h:18:16: warning: "_LARGEFILE_SOURCE" redefined 18 | # define _LARGEFILE_SOURCE | ^~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/aPOSIXaio.c -o aPOSIXaio.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o alibc.lo `test -f 'dmSML/alibc.c' || echo './'`dmSML/alibc.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/alibc.c -fPIC -DPIC -o .libs/alibc.o In file included from dmSML/alibc.c:5: ../libMems/dmSML/asyncio.h:18:16: warning: "_LARGEFILE_SOURCE" redefined 18 | # define _LARGEFILE_SOURCE | ^~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/alibc.c -o alibc.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o awin32aio.lo `test -f 'dmSML/awin32aio.c' || echo './'`dmSML/awin32aio.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/awin32aio.c -fPIC -DPIC -o .libs/awin32aio.o In file included from ../libMems/dmSML/awin32aio.h:8, from dmSML/awin32aio.c:5: ../libMems/dmSML/asyncio.h:18:16: warning: "_LARGEFILE_SOURCE" redefined 18 | # define _LARGEFILE_SOURCE | ^~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/awin32aio.c -o awin32aio.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o buffer.lo `test -f 'dmSML/buffer.c' || echo './'`dmSML/buffer.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/buffer.c -fPIC -DPIC -o .libs/buffer.o In file included from ../libMems/dmSML/buffer.h:8, from dmSML/buffer.c:7: ../libMems/dmSML/asyncio.h:18:16: warning: "_LARGEFILE_SOURCE" redefined 18 | # define _LARGEFILE_SOURCE | ^~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/buffer.c -o buffer.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o util.lo `test -f 'dmSML/util.c' || echo './'`dmSML/util.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/util.c -fPIC -DPIC -o .libs/util.o dmSML/util.c: In function 'removeFile': dmSML/util.c:127:24: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] 127 | rm_cmd = Fmt( "/bin/rm -fv %s", filename ); | ^ dmSML/util.c:129:24: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] 129 | rm_cmd = Fmt( "/bin/rm -f %s", filename ); | ^ libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/util.c -o util.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o sorting.lo `test -f 'dmSML/sorting.c' || echo './'`dmSML/sorting.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/sorting.c -fPIC -DPIC -o .libs/sorting.o In file included from ../libMems/dmSML/buffer.h:8, from ../libMems/dmSML/sorting.h:8, from dmSML/sorting.c:5: ../libMems/dmSML/asyncio.h:18:16: warning: "_LARGEFILE_SOURCE" redefined 18 | # define _LARGEFILE_SOURCE | ^~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/sorting.c -o sorting.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o dmsort.lo `test -f 'dmSML/dmsort.c' || echo './'`dmSML/dmsort.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/dmsort.c -fPIC -DPIC -o .libs/dmsort.o In file included from dmSML/dmsort.c:10: ../libMems/dmSML/asyncio.h:18:16: warning: "_LARGEFILE_SOURCE" redefined 18 | # define _LARGEFILE_SOURCE | ^~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/dmsort.c -o dmsort.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o timing.lo `test -f 'dmSML/timing.c' || echo './'`dmSML/timing.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/timing.c -fPIC -DPIC -o .libs/timing.o libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/timing.c -o timing.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o sml.lo `test -f 'dmSML/sml.c' || echo './'`dmSML/sml.c libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/sml.c -fPIC -DPIC -o .libs/sml.o In file included from ../libMems/dmSML/sml.h:8, from dmSML/sml.c:5: ../libMems/dmSML/asyncio.h:18:16: warning: "_LARGEFILE_SOURCE" redefined 18 | # define _LARGEFILE_SOURCE | ^~~~~~~~~~~~~~~~~ : note: this is the location of the previous definition libtool: compile: arm-linux-gnueabi-gcc -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -DUSE_POSIX_AIO -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c dmSML/sml.c -o sml.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=link arm-linux-gnueabi-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize -I/usr/include/libGenome -I/usr/include/libMUSCLE -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -version-info 1:0:0 -Wl,-z,relro -Wl,-z,now -o libMems.la -rpath /usr/lib/arm-linux-gnueabi RepeatHash.lo DNAFileSML.lo MatchFinder.lo DNAMemorySML.lo MemorySML.lo SortedMerList.lo FileSML.lo MemHash.lo MatchHashEntry.lo Interval.lo IntervalList.lo twister.lo gnAlignedSequences.lo MatchList.lo Aligner.lo Islands.lo MaskedMemHash.lo GappedAlignment.lo MuscleInterface.lo PhyloTree.lo RepeatMatchList.lo RepeatMatch.lo Backbone.lo PairwiseMatchFinder.lo ProgressiveAligner.lo SuperInterval.lo GreedyBreakpointElimination.lo algebras.lo homology.lo homologymain.lo asyncio.lo alinuxaio.lo aPOSIXaio.lo alibc.lo awin32aio.lo buffer.lo util.lo sorting.lo dmsort.lo timing.lo sml.lo -lGenome -lMUSCLE -lboost_filesystem -lboost_iostreams -lboost_system -lrt -lpthread libtool: link: arm-linux-gnueabi-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc-cross/arm-linux-gnueabi/14/../../../../arm-linux-gnueabi/lib/crti.o /usr/lib/gcc-cross/arm-linux-gnueabi/14/crtbeginS.o .libs/RepeatHash.o .libs/DNAFileSML.o .libs/MatchFinder.o .libs/DNAMemorySML.o .libs/MemorySML.o .libs/SortedMerList.o .libs/FileSML.o .libs/MemHash.o .libs/MatchHashEntry.o .libs/Interval.o .libs/IntervalList.o .libs/twister.o .libs/gnAlignedSequences.o .libs/MatchList.o .libs/Aligner.o .libs/Islands.o .libs/MaskedMemHash.o .libs/GappedAlignment.o .libs/MuscleInterface.o .libs/PhyloTree.o .libs/RepeatMatchList.o .libs/RepeatMatch.o .libs/Backbone.o .libs/PairwiseMatchFinder.o .libs/ProgressiveAligner.o .libs/SuperInterval.o .libs/GreedyBreakpointElimination.o .libs/algebras.o .libs/homology.o .libs/homologymain.o .libs/asyncio.o .libs/alinuxaio.o .libs/aPOSIXaio.o .libs/alibc.o .libs/awin32aio.o .libs/buffer.o .libs/util.o .libs/sorting.o .libs/dmsort.o .libs/timing.o .libs/sml.o -lGenome -lMUSCLE -lboost_filesystem -lboost_iostreams -lboost_system -lrt -lpthread -L/usr/lib/gcc-cross/arm-linux-gnueabi/14 -L/usr/lib/gcc-cross/arm-linux-gnueabi/14/../../../../arm-linux-gnueabi/lib -L/lib/arm-linux-gnueabi -L/usr/lib/arm-linux-gnueabi -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc-cross/arm-linux-gnueabi/14/crtendS.o /usr/lib/gcc-cross/arm-linux-gnueabi/14/../../../../arm-linux-gnueabi/lib/crtn.o -O2 -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,libMems.so.1 -o .libs/libMems.so.1.0.0 libtool: link: (cd ".libs" && rm -f "libMems.so.1" && ln -s "libMems.so.1.0.0" "libMems.so.1") libtool: link: (cd ".libs" && rm -f "libMems.so" && ln -s "libMems.so.1.0.0" "libMems.so") libtool: link: arm-linux-gnueabi-ar cr .libs/libMems.a RepeatHash.o DNAFileSML.o MatchFinder.o DNAMemorySML.o MemorySML.o SortedMerList.o FileSML.o MemHash.o MatchHashEntry.o Interval.o IntervalList.o twister.o gnAlignedSequences.o MatchList.o Aligner.o Islands.o MaskedMemHash.o GappedAlignment.o MuscleInterface.o PhyloTree.o RepeatMatchList.o RepeatMatch.o Backbone.o PairwiseMatchFinder.o ProgressiveAligner.o SuperInterval.o GreedyBreakpointElimination.o algebras.o homology.o homologymain.o asyncio.o alinuxaio.o aPOSIXaio.o alibc.o awin32aio.o buffer.o util.o sorting.o dmsort.o timing.o sml.o libtool: link: arm-linux-gnueabi-ranlib .libs/libMems.a libtool: link: ( cd ".libs" && rm -f "libMems.la" && ln -s "../libMems.la" "libMems.la" ) make[3]: Leaving directory '/<>/libMems' make[3]: Entering directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh: command-omitted: The call to "dh_auto_test -a" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a make -j1 install DESTDIR=/<>/libmems-1.6.0\+4725/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/<>' Making install in libMems make[2]: Entering directory '/<>/libMems' make[3]: Entering directory '/<>/libMems' /usr/bin/mkdir -p '/<>/debian/tmp/usr/lib/arm-linux-gnueabi' /bin/bash ../libtool --mode=install /usr/bin/install -c libMems.la '/<>/debian/tmp/usr/lib/arm-linux-gnueabi' libtool: install: /usr/bin/install -c .libs/libMems.so.1.0.0 /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libMems.so.1.0.0 libtool: install: (cd /<>/debian/tmp/usr/lib/arm-linux-gnueabi && { ln -s -f libMems.so.1.0.0 libMems.so.1 || { rm -f libMems.so.1 && ln -s libMems.so.1.0.0 libMems.so.1; }; }) libtool: install: (cd /<>/debian/tmp/usr/lib/arm-linux-gnueabi && { ln -s -f libMems.so.1.0.0 libMems.so || { rm -f libMems.so && ln -s libMems.so.1.0.0 libMems.so; }; }) libtool: install: /usr/bin/install -c .libs/libMems.lai /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libMems.la libtool: install: /usr/bin/install -c .libs/libMems.a /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libMems.a libtool: install: chmod 644 /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libMems.a libtool: install: arm-linux-gnueabi-ranlib /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libMems.a libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabi' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/libMems/dmSML' /usr/bin/install -c -m 644 dmSML/asyncio.h dmSML/alinuxaio.h dmSML/aPOSIXaio.h dmSML/alibc.h dmSML/awin32aio.h dmSML/buffer.h dmSML/util.h dmSML/sorting.h dmSML/dmsort.h dmSML/timing.h dmSML/sml.h '/<>/debian/tmp/usr/include/libMems/dmSML' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/libMems/HomologyHMM' /usr/bin/install -c -m 644 HomologyHMM/homology.h HomologyHMM/dptables.h HomologyHMM/algebras.h HomologyHMM/parameters.h '/<>/debian/tmp/usr/include/libMems/HomologyHMM' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/libMems' /usr/bin/install -c -m 644 RepeatHash.h MatchHashEntry.h DNAFileSML.h MemorySML.h MatchProjectionAdapter.h DNAMemorySML.h MatchFinder.h SortedMerList.h IntervalList.h FileSML.h gnAlignedSequences.h Interval.h MemHash.h AbstractMatch.h SlotAllocator.h Aligner.h Match.h MatchList.h Matrix.h NumericMatrix.h Islands.h MaskedMemHash.h SeedMasks.h GappedAlignment.h MuscleInterface.h GappedAligner.h PhyloTree.h SparseAbstractMatch.h DenseAbstractMatch.h RepeatMatch.h UngappedLocalAlignment.h AbstractGappedAlignment.h CompactGappedAlignment.h HybridAbstractMatch.h twister.h SubstitutionMatrix.h RepeatMatchList.h Backbone.h ProgressiveAligner.h PairwiseMatchAdapter.h '/<>/debian/tmp/usr/include/libMems' /usr/bin/install -c -m 644 PairwiseMatchFinder.h SeedOccurrenceList.h TreeUtilities.h SuperInterval.h GreedyBreakpointElimination.h LCB.h DistanceMatrix.h Scoring.h configuration.h Memory.h Files.h gnRAWSequence.h '/<>/debian/tmp/usr/include/libMems' make[3]: Leaving directory '/<>/libMems' make[2]: Leaving directory '/<>/libMems' make[2]: Entering directory '/<>' make[3]: Entering directory '/<>' make[3]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/<>/debian/tmp/usr/lib/arm-linux-gnueabi/pkgconfig' /usr/bin/install -c -m 644 libMems.pc '/<>/debian/tmp/usr/lib/arm-linux-gnueabi/pkgconfig' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install d-shlibmove --commit \ --t64 \ --multiarch \ --devunversioned \ --exclude-la \ --override s/libGenome0-dev/libgenome-dev/ \ --override s/libMUSCLE1-dev/libmuscle-dev/ \ --movedev debian/tmp/usr/include usr \ --movedev "debian/tmp/usr/lib/*/pkgconfig/*.pc" \ usr/lib/arm-linux-gnueabi/pkgconfig \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility --> libboost-filesystem1.83-dev package exists. --> libboost-iostreams1.83-dev package exists. --> libgenome-dev package exists. --> libmuscle-dev package exists. set -e install -d -m 755 debian/libmems-dev/usr/lib/arm-linux-gnueabi install -d -m 755 debian/libmems1t64/usr/lib/arm-linux-gnueabi mv debian/tmp/usr/lib/arm-linux-gnueabi/libMems.a debian/libmems-dev/usr/lib/arm-linux-gnueabi mv debian/tmp/usr/lib/arm-linux-gnueabi/libMems.so debian/libmems-dev/usr/lib/arm-linux-gnueabi mv /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libMems.so.1 debian/libmems1t64/usr/lib/arm-linux-gnueabi mv /<>/debian/tmp/usr/lib/arm-linux-gnueabi/libMems.so.1.0.0 debian/libmems1t64/usr/lib/arm-linux-gnueabi PKGDEV=libmems-dev PKGSHL=libmems1t64 install -d -m 755 debian/libmems-dev/usr mv debian/tmp/usr/include debian/libmems-dev/usr install -d -m 755 debian/libmems-dev/usr/lib/arm-linux-gnueabi/pkgconfig mv debian/tmp/usr/lib/*/pkgconfig/*.pc debian/libmems-dev/usr/lib/arm-linux-gnueabi/pkgconfig find debian -name "lib*.la" -delete # Convert a header file with leftover national encoding. iconv -f ISO-8859-1 -t UTF-8 libMems/Matrix.h \ -o debian/libmems-dev/usr/include/libMems/Matrix.h make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux.so.3.usr-is-merged dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libmems1t64/usr/lib/arm-linux-gnueabi/libMems.so.1.0.0 found in none of the libraries dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'libmems-dev' in '../libmems-dev_1.6.0+4725-11_armel.deb'. dpkg-deb: building package 'libmems1t64' in '../libmems1t64_1.6.0+4725-11_armel.deb'. dpkg-deb: building package 'libmems1t64-dbgsym' in '../libmems1t64-dbgsym_1.6.0+4725-11_armel.deb'. dpkg-genbuildinfo --build=any -O../libmems_1.6.0+4725-11_armel.buildinfo dpkg-genchanges --build=any -O../libmems_1.6.0+4725-11_armel.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2024-10-15T10:51:54Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ libmems_1.6.0+4725-11_armel.changes: ------------------------------------ Format: 1.8 Date: Wed, 17 Jul 2024 20:45:19 +0200 Source: libmems Binary: libmems-dev libmems1t64 libmems1t64-dbgsym Built-For-Profiles: cross nocheck Architecture: armel Version: 1.6.0+4725-11 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: libmems-dev - development library to support DNA string matching and comparativ libmems1t64 - library to support DNA string matching and comparative genomics Closes: 1075186 Changes: libmems (1.6.0+4725-11) unstable; urgency=medium . * gcc-14.patch: new: hint a constant type to fix a build failure. (Closes: #1075186) * d/control: declare compliance to standards version 4.7.0. * d/control: migrate from pkg-config to pkgconf. * d/libmems1t64.lintian-overrides: fix a mismatch. * d/rules: convert leftover header file with national encoding to utf8. * d/s/lintian-overrides: new: flag error caused by t64 transission. Checksums-Sha1: a45e6ca25e0f109c8c849888b70eaa151525daa3 913868 libmems-dev_1.6.0+4725-11_armel.deb 4dd181dee4d5df74bd566f75ab05062d94e193a8 10148536 libmems1t64-dbgsym_1.6.0+4725-11_armel.deb 88e4583e4c3c99deef58a65282bd75efc7bf5841 619552 libmems1t64_1.6.0+4725-11_armel.deb 73dbd333457bad94895f07563a22fc9008fc46be 6731 libmems_1.6.0+4725-11_armel.buildinfo Checksums-Sha256: 8fcfebaef1d1d5fdd801fb0fbee5b4cde5e40f408d71de098864ddea720a3880 913868 libmems-dev_1.6.0+4725-11_armel.deb 1e4ec6e2ed92120204d4aba876412fe59e3cc2e76bf83a60b15cff44d15aa35f 10148536 libmems1t64-dbgsym_1.6.0+4725-11_armel.deb 916fde6de206eb8c700f1e28122873373a9ee45b33238c0d411f63c218937d7a 619552 libmems1t64_1.6.0+4725-11_armel.deb a6b2e6e32d393c031a6bdc9d878761d61779c722e51630837d6c9476af67e8cd 6731 libmems_1.6.0+4725-11_armel.buildinfo Files: 3bc203f223bbe729b913995a9d6f7a9f 913868 libdevel optional libmems-dev_1.6.0+4725-11_armel.deb dccaba39d474e559e6e898de949eb645 10148536 debug optional libmems1t64-dbgsym_1.6.0+4725-11_armel.deb 75712e01cbd7babf9431ceed93231cc9 619552 libs optional libmems1t64_1.6.0+4725-11_armel.deb df7439ee045d746742f5677f6c4fca14 6731 science optional libmems_1.6.0+4725-11_armel.buildinfo +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: libmems Binary: libmems-dev libmems1t64 libmems1t64-dbgsym Architecture: armel Version: 1.6.0+4725-11 Checksums-Md5: 3bc203f223bbe729b913995a9d6f7a9f 913868 libmems-dev_1.6.0+4725-11_armel.deb dccaba39d474e559e6e898de949eb645 10148536 libmems1t64-dbgsym_1.6.0+4725-11_armel.deb 75712e01cbd7babf9431ceed93231cc9 619552 libmems1t64_1.6.0+4725-11_armel.deb Checksums-Sha1: a45e6ca25e0f109c8c849888b70eaa151525daa3 913868 libmems-dev_1.6.0+4725-11_armel.deb 4dd181dee4d5df74bd566f75ab05062d94e193a8 10148536 libmems1t64-dbgsym_1.6.0+4725-11_armel.deb 88e4583e4c3c99deef58a65282bd75efc7bf5841 619552 libmems1t64_1.6.0+4725-11_armel.deb Checksums-Sha256: 8fcfebaef1d1d5fdd801fb0fbee5b4cde5e40f408d71de098864ddea720a3880 913868 libmems-dev_1.6.0+4725-11_armel.deb 1e4ec6e2ed92120204d4aba876412fe59e3cc2e76bf83a60b15cff44d15aa35f 10148536 libmems1t64-dbgsym_1.6.0+4725-11_armel.deb 916fde6de206eb8c700f1e28122873373a9ee45b33238c0d411f63c218937d7a 619552 libmems1t64_1.6.0+4725-11_armel.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Tue, 15 Oct 2024 10:51:54 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs Installed-Build-Depends: adduser (= 3.137), apt (= 2.9.8), autoconf (= 2.72-3), automake (= 1:1.16.5-1.3), autopoint (= 0.22.5-2), autotools-dev (= 20220109.1), base-files (= 13.5), base-passwd (= 3.6.4), bash (= 5.2.32-1+b1), binutils (= 2.43.1-5), binutils-common (= 2.43.1-5), binutils-x86-64-linux-gnu (= 2.43.1-5), bsdextrautils (= 2.40.2-9), bsdutils (= 1:2.40.2-9), build-essential (= 12.12), bzip2 (= 1.0.8-6), coreutils (= 9.4-3.1), cpp (= 4:14.2.0-1), cpp-14 (= 14.2.0-6), cpp-14-x86-64-linux-gnu (= 14.2.0-6), cpp-x86-64-linux-gnu (= 4:14.2.0-1), d-shlibs (= 0.107), dash (= 0.5.12-9), debconf (= 1.5.87), debhelper (= 13.20), debian-archive-keyring (= 2023.4), debianutils (= 5.20), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.14.0-1), diffutils (= 1:3.10-1), dpkg (= 1.22.11), dpkg-dev (= 1.22.11), dwz (= 0.15-1+b1), file (= 1:5.45-3), findutils (= 4.10.0-3), g++ (= 4:14.2.0-1), g++-14 (= 14.2.0-6), g++-14-x86-64-linux-gnu (= 14.2.0-6), g++-x86-64-linux-gnu (= 4:14.2.0-1), gcc (= 4:14.2.0-1), gcc-14 (= 14.2.0-6), gcc-14-base (= 14.2.0-6), gcc-14-x86-64-linux-gnu (= 14.2.0-6), gcc-x86-64-linux-gnu (= 4:14.2.0-1), gettext (= 0.22.5-2), gettext-base (= 0.22.5-2), gpgv (= 2.2.44-1), grep (= 3.11-4), groff-base (= 1.23.0-5), gzip (= 1.12-1.1), hostname (= 3.25), icu-devtools (= 72.1-5), init-system-helpers (= 1.67), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-2), libapt-pkg6.0t64 (= 2.9.8), libarchive-zip-perl (= 1.68-1), libasan8 (= 14.2.0-6), libatomic1 (= 14.2.0-6), libattr1 (= 1:2.5.2-2), libaudit-common (= 1:4.0.1-1), libaudit1 (= 1:4.0.1-1), libbinutils (= 2.43.1-5), libblkid1 (= 2.40.2-9), libboost-atomic1.83-dev (= 1.83.0-3.2), libboost-atomic1.83.0 (= 1.83.0-3.2), libboost-filesystem-dev (= 1.83.0.2+b2), libboost-filesystem1.83-dev (= 1.83.0-3.2), libboost-filesystem1.83.0 (= 1.83.0-3.2), libboost-iostreams-dev (= 1.83.0.2+b2), libboost-iostreams1.83-dev (= 1.83.0-3.2), libboost-iostreams1.83.0 (= 1.83.0-3.2), libboost-program-options-dev (= 1.83.0.2+b2), libboost-program-options1.83-dev (= 1.83.0-3.2), libboost-program-options1.83.0 (= 1.83.0-3.2), libboost-regex1.83-dev (= 1.83.0-3.2), libboost-regex1.83.0 (= 1.83.0-3.2), libboost-system1.83-dev (= 1.83.0-3.2), libboost-system1.83.0 (= 1.83.0-3.2), libboost1.83-dev (= 1.83.0-3.2), libbsd0 (= 0.12.2-2), libbz2-1.0 (= 1.0.8-6), libc-bin (= 2.40-3), libc-dev-bin (= 2.40-3), libc6 (= 2.40-3), libc6-dev (= 2.40-3), libcap-ng0 (= 0.8.5-2), libcap2 (= 1:2.66-5), libcc1-0 (= 14.2.0-6), libcrypt-dev (= 1:4.4.36-5), libcrypt1 (= 1:4.4.36-5), libctf-nobfd0 (= 2.43.1-5), libctf0 (= 2.43.1-5), libdb5.3t64 (= 5.3.28+dfsg2-8), libdebconfclient0 (= 0.272), libdebhelper-perl (= 13.20), libdpkg-perl (= 1.22.11), libelf1t64 (= 0.191-2), libffi8 (= 3.4.6-1), libfile-stripnondeterminism-perl (= 1.14.0-1), libgcc-14-dev (= 14.2.0-6), libgcc-s1 (= 14.2.0-6), libgcrypt20 (= 1.11.0-6), libgdbm-compat4t64 (= 1.24-2), libgdbm6t64 (= 1.24-2), libgenome-dev (= 1.3.11+svn20110227.4616-6+b1), libgenome0 (= 1.3.11+svn20110227.4616-6+b1), libgmp10 (= 2:6.3.0+dfsg-2+b1), libgnutls30t64 (= 3.8.6-2), libgomp1 (= 14.2.0-6), libgpg-error0 (= 1.50-4), libgprofng0 (= 2.43.1-5), libhogweed6t64 (= 3.10-1), libhwasan0 (= 14.2.0-6), libicu-dev (= 72.1-5), libicu72 (= 72.1-5), libidn2-0 (= 2.3.7-2), libisl23 (= 0.27-1), libitm1 (= 14.2.0-6), libjansson4 (= 2.14-2+b2), liblsan0 (= 14.2.0-6), liblz4-1 (= 1.9.4-3), liblzma5 (= 5.6.2-2), libmagic-mgc (= 1:5.45-3), libmagic1t64 (= 1:5.45-3), libmd0 (= 1.1.0-2), libmount1 (= 2.40.2-9), libmpc3 (= 1.3.1-1+b2), libmpfr6 (= 4.2.1-1+b1), libmuscle-dev (= 3.7+4565-8), libmuscle1 (= 3.7+4565-8), libnettle8t64 (= 3.10-1), libp11-kit0 (= 0.25.5-2), libpam-modules (= 1.5.3-7), libpam-modules-bin (= 1.5.3-7), libpam-runtime (= 1.5.3-7), libpam0g (= 1.5.3-7), libpcre2-8-0 (= 10.42-4+b1), libperl5.40 (= 5.40.0-6), libpipeline1 (= 1.5.8-1), libpkgconf3 (= 1.8.1-3), libquadmath0 (= 14.2.0-6), libseccomp2 (= 2.5.5-1+b1), libselinux1 (= 3.7-3), libsemanage-common (= 3.7-2), libsemanage2 (= 3.7-2), libsepol2 (= 3.7-1), libsframe1 (= 2.43.1-5), libsmartcols1 (= 2.40.2-9), libssl3t64 (= 3.3.2-1), libstdc++-14-dev (= 14.2.0-6), libstdc++6 (= 14.2.0-6), libsystemd0 (= 256.7-1), libtasn1-6 (= 4.19.0-3+b2), libtinfo6 (= 6.5-2), libtool (= 2.4.7-7), libtsan2 (= 14.2.0-6), libubsan1 (= 14.2.0-6), libuchardet0 (= 0.0.8-1+b1), libudev1 (= 256.7-1), libunistring5 (= 1.2-1), libuuid1 (= 2.40.2-9), libxml2 (= 2.12.7+dfsg+really2.9.14-0.1), libxxhash0 (= 0.8.2-2+b1), libzstd1 (= 1.5.6+dfsg-1), linux-libc-dev (= 6.11.2-1), login.defs (= 1:4.16.0-4), m4 (= 1.4.19-4), make (= 4.3-4.1), man-db (= 2.13.0-1), mawk (= 1.3.4.20240905-1), ncurses-base (= 6.5-2), ncurses-bin (= 6.5-2), openssl-provider-legacy (= 3.3.2-1), passwd (= 1:4.16.0-4), patch (= 2.7.6-7), perl (= 5.40.0-6), perl-base (= 5.40.0-6), perl-modules-5.40 (= 5.40.0-6), pkgconf (= 1.8.1-3), pkgconf-bin (= 1.8.1-3), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.24), sysvinit-utils (= 3.10-2), tar (= 1.35+dfsg-3), usr-is-merged (= 39), util-linux (= 2.40.2-9), xz-utils (= 5.6.2-2), zlib1g (= 1:1.3.dfsg+really1.3.1-1) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" SOURCE_DATE_EPOCH="1721241919" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ libmems-dev_1.6.0+4725-11_armel.deb ----------------------------------- new Debian package, version 2.0. size 913868 bytes: control archive=2912 bytes. 1189 bytes, 23 lines control 5010 bytes, 71 lines md5sums Package: libmems-dev Source: libmems Version: 1.6.0+4725-11 Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 4970 Depends: libmems1t64 (= 1.6.0+4725-11), libboost-filesystem1.83-dev, libboost-iostreams1.83-dev, libgenome-dev, libmuscle-dev Provides: libmems-1.6-dev Section: libdevel Priority: optional Homepage: http://sourceforge.net/p/mauve/code/HEAD/tree/libMems/trunk/ Description: development library to support DNA string matching and comparative genomics libMems is a freely available software development library to support DNA string matching and comparative genomics. Among other things, libMems implements an algorithm to perform approximate multi-MUM and multi-MEM identification. The algorithm uses spaced seed patterns in conjunction with a seed-and-extend style hashing method to identify matches. The method is efficient, requiring a maximum of only 16 bytes per base of the largest input sequence, and this data can be stored externally (i.e. on disk) to further reduce memory requirements. . This is the development package containing the statically linked library and the header files. drwxr-xr-x root/root 0 2024-07-17 18:45 ./ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/include/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/include/libMems/ -rw-r--r-- root/root 3614 2024-07-17 18:45 ./usr/include/libMems/AbstractGappedAlignment.h -rw-r--r-- root/root 13029 2024-07-17 18:45 ./usr/include/libMems/AbstractMatch.h -rw-r--r-- root/root 11670 2024-07-17 18:45 ./usr/include/libMems/Aligner.h -rw-r--r-- root/root 8161 2024-07-17 18:45 ./usr/include/libMems/Backbone.h -rw-r--r-- root/root 26662 2024-07-17 18:45 ./usr/include/libMems/CompactGappedAlignment.h -rw-r--r-- root/root 2075 2024-07-17 18:45 ./usr/include/libMems/DNAFileSML.h -rw-r--r-- root/root 1905 2024-07-17 18:45 ./usr/include/libMems/DNAMemorySML.h -rw-r--r-- root/root 5031 2024-07-17 18:45 ./usr/include/libMems/DenseAbstractMatch.h -rw-r--r-- root/root 10891 2024-07-17 18:45 ./usr/include/libMems/DistanceMatrix.h -rw-r--r-- root/root 4590 2024-07-17 18:45 ./usr/include/libMems/FileSML.h -rw-r--r-- root/root 5777 2024-07-17 18:45 ./usr/include/libMems/Files.h -rw-r--r-- root/root 2513 2024-07-17 18:45 ./usr/include/libMems/GappedAligner.h -rw-r--r-- root/root 8478 2024-07-17 18:45 ./usr/include/libMems/GappedAlignment.h -rw-r--r-- root/root 29239 2024-07-17 18:45 ./usr/include/libMems/GreedyBreakpointElimination.h drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/include/libMems/HomologyHMM/ -rw-r--r-- root/root 20861 2024-07-17 18:45 ./usr/include/libMems/HomologyHMM/algebras.h -rw-r--r-- root/root 13161 2024-07-17 18:45 ./usr/include/libMems/HomologyHMM/dptables.h -rw-r--r-- root/root 7163 2024-07-17 18:45 ./usr/include/libMems/HomologyHMM/homology.h -rw-r--r-- root/root 7759 2024-07-17 18:45 ./usr/include/libMems/HomologyHMM/parameters.h -rw-r--r-- root/root 9786 2024-07-17 18:45 ./usr/include/libMems/HybridAbstractMatch.h -rw-r--r-- root/root 30049 2024-07-17 18:45 ./usr/include/libMems/Interval.h -rw-r--r-- root/root 27519 2024-07-17 18:45 ./usr/include/libMems/IntervalList.h -rw-r--r-- root/root 13712 2024-07-17 18:45 ./usr/include/libMems/Islands.h -rw-r--r-- root/root 1825 2024-07-17 18:45 ./usr/include/libMems/LCB.h -rw-r--r-- root/root 1416 2024-07-17 18:45 ./usr/include/libMems/MaskedMemHash.h -rw-r--r-- root/root 926 2024-07-17 18:45 ./usr/include/libMems/Match.h -rw-r--r-- root/root 13449 2024-07-17 18:45 ./usr/include/libMems/MatchFinder.h -rw-r--r-- root/root 4728 2024-07-17 18:45 ./usr/include/libMems/MatchHashEntry.h -rw-r--r-- root/root 22769 2024-07-17 18:45 ./usr/include/libMems/MatchList.h -rw-r--r-- root/root 4377 2024-07-17 18:45 ./usr/include/libMems/MatchProjectionAdapter.h -rw-r--r-- root/root 4017 2024-07-17 18:45 ./usr/include/libMems/Matrix.h -rw-r--r-- root/root 7182 2024-07-17 18:45 ./usr/include/libMems/MemHash.h -rw-r--r-- root/root 1543 2024-07-17 18:45 ./usr/include/libMems/Memory.h -rw-r--r-- root/root 1988 2024-07-17 18:45 ./usr/include/libMems/MemorySML.h -rw-r--r-- root/root 5235 2024-07-17 18:45 ./usr/include/libMems/MuscleInterface.h -rw-r--r-- root/root 4605 2024-07-17 18:45 ./usr/include/libMems/NumericMatrix.h -rw-r--r-- root/root 3674 2024-07-17 18:45 ./usr/include/libMems/PairwiseMatchAdapter.h -rw-r--r-- root/root 1013 2024-07-17 18:45 ./usr/include/libMems/PairwiseMatchFinder.h -rw-r--r-- root/root 10333 2024-07-17 18:45 ./usr/include/libMems/PhyloTree.h -rw-r--r-- root/root 24671 2024-07-17 18:45 ./usr/include/libMems/ProgressiveAligner.h -rw-r--r-- root/root 1428 2024-07-17 18:45 ./usr/include/libMems/RepeatHash.h -rw-r--r-- root/root 1453 2024-07-17 18:45 ./usr/include/libMems/RepeatMatch.h -rw-r--r-- root/root 2195 2024-07-17 18:45 ./usr/include/libMems/RepeatMatchList.h -rw-r--r-- root/root 10167 2024-07-17 18:45 ./usr/include/libMems/Scoring.h -rw-r--r-- root/root 9694 2024-07-17 18:45 ./usr/include/libMems/SeedMasks.h -rw-r--r-- root/root 2483 2024-07-17 18:45 ./usr/include/libMems/SeedOccurrenceList.h -rw-r--r-- root/root 4383 2024-07-17 18:45 ./usr/include/libMems/SlotAllocator.h -rw-r--r-- root/root 12250 2024-07-17 18:45 ./usr/include/libMems/SortedMerList.h -rw-r--r-- root/root 7625 2024-07-17 18:45 ./usr/include/libMems/SparseAbstractMatch.h -rw-r--r-- root/root 3100 2024-07-17 18:45 ./usr/include/libMems/SubstitutionMatrix.h -rw-r--r-- root/root 1879 2024-07-17 18:45 ./usr/include/libMems/SuperInterval.h -rw-r--r-- root/root 4590 2024-07-17 18:45 ./usr/include/libMems/TreeUtilities.h -rw-r--r-- root/root 7254 2024-07-17 18:45 ./usr/include/libMems/UngappedLocalAlignment.h -rw-r--r-- root/root 1214 2024-07-17 18:45 ./usr/include/libMems/configuration.h drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/include/libMems/dmSML/ -rw-r--r-- root/root 387 2024-07-17 18:45 ./usr/include/libMems/dmSML/aPOSIXaio.h -rw-r--r-- root/root 328 2024-07-17 18:45 ./usr/include/libMems/dmSML/alibc.h -rw-r--r-- root/root 387 2024-07-17 18:45 ./usr/include/libMems/dmSML/alinuxaio.h -rw-r--r-- root/root 4402 2024-07-17 18:45 ./usr/include/libMems/dmSML/asyncio.h -rw-r--r-- root/root 377 2024-07-17 18:45 ./usr/include/libMems/dmSML/awin32aio.h -rw-r--r-- root/root 7161 2024-07-17 18:45 ./usr/include/libMems/dmSML/buffer.h -rw-r--r-- root/root 4979 2024-07-17 18:45 ./usr/include/libMems/dmSML/dmsort.h -rw-r--r-- root/root 2197 2024-07-17 18:45 ./usr/include/libMems/dmSML/sml.h -rw-r--r-- root/root 2438 2024-07-17 18:45 ./usr/include/libMems/dmSML/sorting.h -rw-r--r-- root/root 393 2024-07-17 18:45 ./usr/include/libMems/dmSML/timing.h -rw-r--r-- root/root 731 2024-07-17 18:45 ./usr/include/libMems/dmSML/util.h -rw-r--r-- root/root 13038 2024-07-17 18:45 ./usr/include/libMems/gnAlignedSequences.h -rw-r--r-- root/root 7484 2024-07-17 18:45 ./usr/include/libMems/gnRAWSequence.h -rw-r--r-- root/root 309 2024-07-17 18:45 ./usr/include/libMems/twister.h drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/lib/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/lib/arm-linux-gnueabi/ -rw-r--r-- root/root 4543464 2024-07-17 18:45 ./usr/lib/arm-linux-gnueabi/libMems.a lrwxrwxrwx root/root 0 2024-07-17 18:45 ./usr/lib/arm-linux-gnueabi/libMems.so -> libMems.so.1.0.0 drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/lib/arm-linux-gnueabi/pkgconfig/ -rw-r--r-- root/root 391 2024-07-17 18:45 ./usr/lib/arm-linux-gnueabi/pkgconfig/libMems.pc drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/share/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/share/doc/libmems-dev/ -rw-r--r-- root/root 762 2024-07-17 18:45 ./usr/share/doc/libmems-dev/changelog.Debian.gz -rw-r--r-- root/root 2464 2024-07-17 18:45 ./usr/share/doc/libmems-dev/copyright libmems1t64-dbgsym_1.6.0+4725-11_armel.deb ------------------------------------------ new Debian package, version 2.0. size 10148536 bytes: control archive=560 bytes. 413 bytes, 13 lines control 106 bytes, 1 lines md5sums Package: libmems1t64-dbgsym Source: libmems Version: 1.6.0+4725-11 Auto-Built-Package: debug-symbols Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 10151 Depends: libmems1t64 (= 1.6.0+4725-11) Section: debug Priority: optional Multi-Arch: same Description: debug symbols for libmems1t64 Build-Ids: 3f1eb47c86d32aff29f46400766f5a2a8a5e149d drwxr-xr-x root/root 0 2024-07-17 18:45 ./ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/lib/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/lib/debug/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/lib/debug/.build-id/3f/ -rw-r--r-- root/root 10384292 2024-07-17 18:45 ./usr/lib/debug/.build-id/3f/1eb47c86d32aff29f46400766f5a2a8a5e149d.debug drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/share/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/share/doc/ lrwxrwxrwx root/root 0 2024-07-17 18:45 ./usr/share/doc/libmems1t64-dbgsym -> libmems1t64 libmems1t64_1.6.0+4725-11_armel.deb ----------------------------------- new Debian package, version 2.0. size 619552 bytes: control archive=1260 bytes. 1318 bytes, 24 lines control 301 bytes, 4 lines md5sums 38 bytes, 1 lines shlibs 66 bytes, 2 lines triggers Package: libmems1t64 Source: libmems Version: 1.6.0+4725-11 Architecture: armel Maintainer: Debian Med Packaging Team Installed-Size: 1760 Depends: libboost-filesystem1.83.0 (>= 1.83.0), libboost-iostreams1.83.0 (>= 1.83.0), libc6 (>= 2.34), libgcc-s1 (>= 3.5), libgenome0 (>= 1.3.11+svn20110227.4616), libmuscle1 (>= 3.7+4565), libstdc++6 (>= 13.1) Conflicts: libmems-1.6-1, libmems-1.6-1v5, libmems1 (<< 1.6.0+4725-11) Replaces: libmems-1.6-1, libmems-1.6-1v5, libmems1 Section: libs Priority: optional Multi-Arch: same Homepage: http://sourceforge.net/p/mauve/code/HEAD/tree/libMems/trunk/ Description: library to support DNA string matching and comparative genomics libMems is a freely available software development library to support DNA string matching and comparative genomics. Among other things, libMems implements an algorithm to perform approximate multi-MUM and multi-MEM identification. The algorithm uses spaced seed patterns in conjunction with a seed-and-extend style hashing method to identify matches. The method is efficient, requiring a maximum of only 16 bytes per base of the largest input sequence, and this data can be stored externally (i.e. on disk) to further reduce memory requirements. . This package contains the dynamic library. drwxr-xr-x root/root 0 2024-07-17 18:45 ./ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/lib/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/lib/arm-linux-gnueabi/ lrwxrwxrwx root/root 0 2024-07-17 18:45 ./usr/lib/arm-linux-gnueabi/libMems.so.1 -> libMems.so.1.0.0 -rw-r--r-- root/root 1783768 2024-07-17 18:45 ./usr/lib/arm-linux-gnueabi/libMems.so.1.0.0 drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/share/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/share/doc/libmems1t64/ -rw-r--r-- root/root 760 2024-07-17 18:45 ./usr/share/doc/libmems1t64/changelog.Debian.gz -rw-r--r-- root/root 2464 2024-07-17 18:45 ./usr/share/doc/libmems1t64/copyright drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/share/lintian/ drwxr-xr-x root/root 0 2024-07-17 18:45 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 56 2024-07-17 18:45 ./usr/share/lintian/overrides/libmems1t64 lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/apt_archive/sbuild-build-depends-lintian-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [615 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [1458 B] Get:5 copy:/<>/apt_archive ./ Packages [1537 B] Fetched 3610 B in 0s (0 B/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The solver encountered an error of type: Execute external solver... ERR_UNSOLVABLE The following information might help you to understand what is wrong: Unsatisfied dependencies: libsereal-encoder-perl : Depends: perlapi-5.38.2 but it is not installable libtext-xslate-perl : Depends: perlapi-5.38.2 but it is not installable Depends: libmouse-perl but it is not going to be installed libparams-classify-perl : Depends: perlapi-5.38.2 but it is not installable libberkeleydb-perl : Depends: perlapi-5.38.2 but it is not installable libtime-moment-perl : Depends: perlapi-5.38.2 but it is not installable libcpanel-json-xs-perl : Depends: perlapi-5.38.2 but it is not installable Some packages could not be installed. This may mean that you have requested an impossible situation or if you are using the unstable distribution that some required packages have not yet been created or been moved out of Incoming. The following information may help to resolve the situation: The following packages have unmet dependencies: sbuild-build-depends-lintian-dummy:armel : Depends: lintian:amd64 E: External solver failed with: Unsatisfied dependencies: apt-get failed. E: Package installation failed Not removing build depends: cloned chroot in use +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 236840 Build-Time: 373 Distribution: unstable Foreign Architectures: armel Host Architecture: armel Install-Time: 12 Job: libmems_1.6.0+4725-11 Lintian: error Machine Architecture: amd64 Package: libmems Package-Time: 395 Source-Version: 1.6.0+4725-11 Space: 236840 Status: successful Version: 1.6.0+4725-11 -------------------------------------------------------------------------------- Finished at 2024-10-15T10:51:54Z Build needed 00:06:35, 236840k disk space