sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org

+==============================================================================+
| progressivemauve 1.2.0+4713+dfsg-4 (armhf)   Wed, 01 Jul 2020 13:00:08 +0000 |
+==============================================================================+

Package: progressivemauve
Version: 1.2.0+4713+dfsg-4
Source Version: 1.2.0+4713+dfsg-4
Distribution: unstable
Machine Architecture: amd64
Host Architecture: armhf
Build Architecture: amd64
Build Profiles: cross nocheck
Build Type: any

I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-44685955-2c0f-4654-9af6-ca26d015b0f7' with '<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/progressivemauve-DYUW7X/resolver-kMPA7X' with '<<RESOLVERDIR>>'

+------------------------------------------------------------------------------+
| Update chroot                                                                |
+------------------------------------------------------------------------------+

Get:1 http://debian.oregonstate.edu/debian unstable InRelease [146 kB]
Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [27.9 kB]
Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [27.9 kB]
Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2020-07-01-0810.32.pdiff [14.2 kB]
Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-07-01-0810.32.pdiff [22.0 kB]
Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2020-07-01-0810.32.pdiff [14.2 kB]
Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-07-01-0810.32.pdiff [22.0 kB]
Get:6 http://debian.oregonstate.edu/debian unstable/main armhf Packages [7994 kB]
Fetched 8232 kB in 2s (5345 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: 'progressivemauve' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/progressivemauve.git
Please use:
git clone https://salsa.debian.org/med-team/progressivemauve.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 116 kB of source archives.
Get:1 http://debian.oregonstate.edu/debian unstable/main progressivemauve 1.2.0+4713+dfsg-4 (dsc) [2300 B]
Get:2 http://debian.oregonstate.edu/debian unstable/main progressivemauve 1.2.0+4713+dfsg-4 (tar) [96.1 kB]
Get:3 http://debian.oregonstate.edu/debian unstable/main progressivemauve 1.2.0+4713+dfsg-4 (diff) [17.7 kB]
Fetched 116 kB in 0s (3191 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/progressivemauve-DYUW7X/progressivemauve-1.2.0+4713+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/progressivemauve-DYUW7X' with '<<BUILDDIR>>'

+------------------------------------------------------------------------------+
| Install package build dependencies                                           |
+------------------------------------------------------------------------------+


Setup apt archive
-----------------

Merged Build-Depends: debhelper (>= 11~), pkgconf, libboost-dev, libboost-system-dev, libboost-filesystem-dev, libboost-program-options-dev, libboost-iostreams-dev, libgenome-dev, libmuscle-dev, libmems-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf
Filtered Build-Depends: debhelper (>= 11~), pkgconf, libboost-dev, libboost-system-dev, libboost-filesystem-dev, libboost-program-options-dev, libboost-iostreams-dev, libgenome-dev, libmuscle-dev, libmems-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf
dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<<RESOLVERDIR>>/apt_archive/sbuild-build-depends-main-dummy.deb'.
Ign:1 copy:/<<RESOLVERDIR>>/apt_archive ./ InRelease
Get:2 copy:/<<RESOLVERDIR>>/apt_archive ./ Release [957 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [456 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [544 B]
Fetched 1957 B in 0s (75.9 kB/s)
Reading package lists...
Reading package lists...

Install main build dependencies (apt-based resolver)
----------------------------------------------------

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
  autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf
  bsdextrautils build-essential cpp-9-arm-linux-gnueabihf
  cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper
  dh-autoreconf dh-strip-nondeterminism dpkg-cross dpkg-dev dwz file g++ g++-9
  g++-9-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-base:armhf
  gcc-10-cross-base gcc-9-arm-linux-gnueabihf gcc-9-arm-linux-gnueabihf-base
  gcc-9-base:armhf gcc-9-cross-base gcc-arm-linux-gnueabihf gettext
  gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl
  libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross
  libboost-dev:armhf libboost-filesystem-dev:armhf
  libboost-filesystem1.71-dev:armhf libboost-filesystem1.71.0:armhf
  libboost-iostreams-dev:armhf libboost-iostreams1.71-dev:armhf
  libboost-iostreams1.71.0:armhf libboost-program-options-dev:armhf
  libboost-program-options1.71-dev:armhf libboost-program-options1.71.0:armhf
  libboost-regex1.71-dev:armhf libboost-regex1.71.0:armhf
  libboost-system-dev:armhf libboost-system1.71-dev:armhf
  libboost-system1.71.0:armhf libboost1.71-dev:armhf libbz2-1.0:armhf
  libc6:armhf libc6-armhf-cross libc6-dev libc6-dev:armhf
  libc6-dev-armhf-cross libconfig-auto-perl libconfig-inifiles-perl libcroco3
  libcrypt-dev libcrypt-dev:armhf libcrypt1:armhf libdebhelper-perl
  libdebian-dpkgcross-perl libdpkg-perl libelf1 libfile-homedir-perl
  libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:armhf
  libgcc-9-dev-armhf-cross libgcc-s1:armhf libgcc-s1-armhf-cross
  libgenome-dev:armhf libgenome0:armhf libglib2.0-0 libgomp1:armhf
  libgomp1-armhf-cross libicu-dev:armhf libicu67 libicu67:armhf
  libio-string-perl liblocale-gettext-perl liblzma5:armhf libmagic-mgc
  libmagic1 libmems-dev:armhf libmems1:armhf libmuscle-dev:armhf
  libmuscle1:armhf libperl5.30 libpipeline1 libpkgconf3 libsigsegv2
  libstdc++-9-dev libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross
  libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtool
  libubsan1:armhf libubsan1-armhf-cross libuchardet0 libxml-libxml-perl
  libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl
  libxml-simple-perl libxml2 libyaml-perl libzstd1:armhf linux-libc-dev:armhf
  linux-libc-dev-armhf-cross m4 man-db perl perl-modules-5.30 pkgconf
  po-debconf sensible-utils ucf zlib1g:armhf
Suggested packages:
  autoconf-archive gnu-standards autoconf-doc binutils-doc gcc-9-locales
  cpp-doc dh-make binutils-multiarch debian-keyring g++-multilib
  g++-9-multilib gcc-9-doc manpages-dev flex bison gdb-arm-linux-gnueabihf
  gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff
  libboost-doc:armhf libboost1.71-doc:armhf libboost-atomic1.71-dev:armhf
  libboost-chrono1.71-dev:armhf libboost-container1.71-dev:armhf
  libboost-context1.71-dev:armhf libboost-contract1.71-dev:armhf
  libboost-coroutine1.71-dev:armhf libboost-date-time1.71-dev:armhf
  libboost-exception1.71-dev:armhf libboost-fiber1.71-dev:armhf
  libboost-graph1.71-dev:armhf libboost-graph-parallel1.71-dev:armhf
  libboost-locale1.71-dev:armhf libboost-log1.71-dev:armhf
  libboost-math1.71-dev:armhf libboost-mpi1.71-dev:armhf
  libboost-mpi-python1.71-dev:armhf libboost-numpy1.71-dev:armhf
  libboost-python1.71-dev:armhf libboost-random1.71-dev:armhf
  libboost-serialization1.71-dev:armhf libboost-stacktrace1.71-dev:armhf
  libboost-test1.71-dev:armhf libboost-thread1.71-dev:armhf
  libboost-timer1.71-dev:armhf libboost-type-erasure1.71-dev:armhf
  libboost-wave1.71-dev:armhf libboost1.71-tools-dev:armhf
  libmpfrc++-dev:armhf libntl-dev:armhf glibc-doc:armhf libc-l10n:armhf
  locales:armhf glibc-doc manpages-dev:armhf gnupg git bzr icu-doc:armhf
  libstdc++-9-doc libstdc++-9-doc:armhf libtool-doc gfortran
  | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less
  www-browser perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl
  libtap-harness-archive-perl libmail-box-perl
Recommended packages:
  gnupg libalgorithm-merge-perl curl | wget | lynx libidn2-0:armhf
  libfile-fcntllock-perl libarchive-cpio-perl libglib2.0-data shared-mime-info
  xdg-user-dirs libltdl-dev libwww-perl libxml-sax-expat-perl
  libyaml-libyaml-perl | libyaml-syck-perl netbase libmail-sendmail-perl
The following NEW packages will be installed:
  autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf
  bsdextrautils build-essential cpp-9-arm-linux-gnueabihf
  cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper
  dh-autoreconf dh-strip-nondeterminism dpkg-cross dpkg-dev dwz file g++ g++-9
  g++-9-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-base:armhf
  gcc-10-cross-base gcc-9-arm-linux-gnueabihf gcc-9-arm-linux-gnueabihf-base
  gcc-9-base:armhf gcc-9-cross-base gcc-arm-linux-gnueabihf gettext
  gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl
  libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross
  libboost-dev:armhf libboost-filesystem-dev:armhf
  libboost-filesystem1.71-dev:armhf libboost-filesystem1.71.0:armhf
  libboost-iostreams-dev:armhf libboost-iostreams1.71-dev:armhf
  libboost-iostreams1.71.0:armhf libboost-program-options-dev:armhf
  libboost-program-options1.71-dev:armhf libboost-program-options1.71.0:armhf
  libboost-regex1.71-dev:armhf libboost-regex1.71.0:armhf
  libboost-system-dev:armhf libboost-system1.71-dev:armhf
  libboost-system1.71.0:armhf libboost1.71-dev:armhf libbz2-1.0:armhf
  libc6:armhf libc6-armhf-cross libc6-dev libc6-dev:armhf
  libc6-dev-armhf-cross libconfig-auto-perl libconfig-inifiles-perl libcroco3
  libcrypt-dev libcrypt-dev:armhf libcrypt1:armhf libdebhelper-perl
  libdebian-dpkgcross-perl libdpkg-perl libelf1 libfile-homedir-perl
  libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:armhf
  libgcc-9-dev-armhf-cross libgcc-s1:armhf libgcc-s1-armhf-cross
  libgenome-dev:armhf libgenome0:armhf libglib2.0-0 libgomp1:armhf
  libgomp1-armhf-cross libicu-dev:armhf libicu67 libicu67:armhf
  libio-string-perl liblocale-gettext-perl liblzma5:armhf libmagic-mgc
  libmagic1 libmems-dev:armhf libmems1:armhf libmuscle-dev:armhf
  libmuscle1:armhf libperl5.30 libpipeline1 libpkgconf3 libsigsegv2
  libstdc++-9-dev libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross
  libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtool
  libubsan1:armhf libubsan1-armhf-cross libuchardet0 libxml-libxml-perl
  libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl
  libxml-simple-perl libxml2 libyaml-perl libzstd1:armhf linux-libc-dev:armhf
  linux-libc-dev-armhf-cross m4 man-db perl perl-modules-5.30 pkgconf
  po-debconf sbuild-build-depends-main-dummy:armhf sensible-utils ucf
  zlib1g:armhf
0 upgraded, 129 newly installed, 0 to remove and 0 not upgraded.
Need to get 121 MB of archives.
After this operation, 608 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [968 B]
Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 bsdextrautils amd64 2.35.2-6 [129 kB]
Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB]
Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-5 [920 kB]
Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.2-2 [33.9 kB]
Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.3-1 [1315 kB]
Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 perl-modules-5.30 all 5.30.3-4 [2806 kB]
Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libperl5.30 amd64 5.30.3-4 [4019 kB]
Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 perl amd64 5.30.3-4 [290 kB]
Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-4 [18.8 kB]
Get:11 http://debian.oregonstate.edu/debian unstable/main armhf gcc-10-base armhf 10.1.0-4 [197 kB]
Get:12 http://debian.oregonstate.edu/debian unstable/main armhf gcc-9-base armhf 9.3.0-14 [197 kB]
Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.38-5 [262 kB]
Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.38-5 [120 kB]
Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.38-5 [67.9 kB]
Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB]
Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0043 [74.0 kB]
Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB]
Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-4 [203 kB]
Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11.1 [341 kB]
Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB]
Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.2-1 [775 kB]
Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-10 [435 kB]
Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-arm-linux-gnueabihf amd64 2.34-8 [2750 kB]
Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.16-1 [104 kB]
Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.30-8 [2631 kB]
Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev amd64 9.3.0-14 [1701 kB]
Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9 amd64 9.3.0-14 [10.7 MB]
Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:9.2.1-3.1 [1644 B]
Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libdpkg-perl all 1.20.3 [1468 kB]
Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-dev all 1.20.3 [1905 kB]
Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.8 [7640 B]
Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf-base amd64 9.3.0-13cross1 [197 kB]
Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-9-arm-linux-gnueabihf amd64 9.3.0-13cross1 [6818 kB]
Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [16.7 kB]
Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3 [39.9 kB]
Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-cross-base all 9.3.0-13cross1 [193 kB]
Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base all 10.1.0-3cross1 [194 kB]
Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-armhf-cross all 2.30-2cross1 [1111 kB]
Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-armhf-cross all 10.1.0-3cross1 [36.2 kB]
Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-armhf-cross all 10.1.0-3cross1 [82.4 kB]
Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-armhf-cross all 10.1.0-3cross1 [6632 B]
Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-armhf-cross all 9.3.0-13cross1 [363 kB]
Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-armhf-cross all 10.1.0-3cross1 [380 kB]
Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-armhf-cross all 10.1.0-3cross1 [115 kB]
Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-9-dev-armhf-cross all 9.3.0-13cross1 [659 kB]
Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf amd64 9.3.0-13cross1 [7180 kB]
Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1476 B]
Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-armhf-cross all 5.4.19-1cross1 [1155 kB]
Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-armhf-cross all 2.30-2cross1 [2118 kB]
Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev-armhf-cross all 9.3.0-13cross1 [1725 kB]
Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9-arm-linux-gnueabihf amd64 9.3.0-13cross1 [7406 kB]
Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 g++-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1184 B]
Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB]
Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB]
Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libicu67 amd64 67.1-2 [8610 kB]
Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.10+dfsg-5+b1 [710 kB]
Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB]
Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB]
Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB]
Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2 [343 kB]
Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB]
Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB]
Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB]
Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB]
Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB]
Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3 [38.7 kB]
Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3 [49.3 kB]
Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-armhf all 12.8 [6644 B]
Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-14 [513 kB]
Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB]
Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 13.1 [187 kB]
Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB]
Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB]
Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.8.1-1 [25.2 kB]
Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.8.1-1 [14.9 kB]
Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB]
Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13-5 [151 kB]
Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.64.3-1 [1341 kB]
Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB]
Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-10 [1303 kB]
Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB]
Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 13.1 [1012 kB]
Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 icu-devtools amd64 67.1-2 [199 kB]
Get:87 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-s1 armhf 10.1.0-4 [36.2 kB]
Get:88 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt1 armhf 1:4.4.16-1 [101 kB]
Get:89 http://debian.oregonstate.edu/debian unstable/main armhf libc6 armhf 2.30-8 [2343 kB]
Get:90 http://debian.oregonstate.edu/debian unstable/main armhf libasan5 armhf 9.3.0-14 [370 kB]
Get:91 http://debian.oregonstate.edu/debian unstable/main armhf libatomic1 armhf 10.1.0-4 [6876 B]
Get:92 http://debian.oregonstate.edu/debian unstable/main armhf libgomp1 armhf 10.1.0-4 [84.4 kB]
Get:93 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++6 armhf 10.1.0-4 [420 kB]
Get:94 http://debian.oregonstate.edu/debian unstable/main armhf libubsan1 armhf 10.1.0-4 [116 kB]
Get:95 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-9-dev armhf 9.3.0-14 [663 kB]
Get:96 http://debian.oregonstate.edu/debian unstable/main armhf linux-libc-dev armhf 5.7.6-1 [1096 kB]
Get:97 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt-dev armhf 1:4.4.16-1 [120 kB]
Get:98 http://debian.oregonstate.edu/debian unstable/main armhf libc6-dev armhf 2.30-8 [2136 kB]
Get:99 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++-9-dev armhf 9.3.0-14 [1757 kB]
Get:100 http://debian.oregonstate.edu/debian unstable/main armhf libboost1.71-dev armhf 1.71.0-6+b2 [9096 kB]
Get:101 http://debian.oregonstate.edu/debian unstable/main armhf libboost-dev armhf 1.71.0.3 [4340 B]
Get:102 http://debian.oregonstate.edu/debian unstable/main armhf libboost-filesystem1.71.0 armhf 1.71.0-6+b2 [260 kB]
Get:103 http://debian.oregonstate.edu/debian unstable/main armhf libboost-system1.71.0 armhf 1.71.0-6+b2 [231 kB]
Get:104 http://debian.oregonstate.edu/debian unstable/main armhf libboost-system1.71-dev armhf 1.71.0-6+b2 [232 kB]
Get:105 http://debian.oregonstate.edu/debian unstable/main armhf libboost-filesystem1.71-dev armhf 1.71.0-6+b2 [273 kB]
Get:106 http://debian.oregonstate.edu/debian unstable/main armhf libboost-filesystem-dev armhf 1.71.0.3 [4160 B]
Get:107 http://debian.oregonstate.edu/debian unstable/main armhf libicu67 armhf 67.1-2 [8315 kB]
Get:108 http://debian.oregonstate.edu/debian unstable/main armhf libboost-regex1.71.0 armhf 1.71.0-6+b2 [444 kB]
Get:109 http://debian.oregonstate.edu/debian unstable/main armhf libicu-dev armhf 67.1-2 [9311 kB]
Get:110 http://debian.oregonstate.edu/debian unstable/main armhf libboost-regex1.71-dev armhf 1.71.0-6+b2 [581 kB]
Get:111 http://debian.oregonstate.edu/debian unstable/main armhf libbz2-1.0 armhf 1.0.8-3 [44.5 kB]
Get:112 http://debian.oregonstate.edu/debian unstable/main armhf liblzma5 armhf 5.2.4-1+b1 [145 kB]
Get:113 http://debian.oregonstate.edu/debian unstable/main armhf libzstd1 armhf 1.4.5+dfsg-3 [290 kB]
Get:114 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g armhf 1:1.2.11.dfsg-2 [85.4 kB]
Get:115 http://debian.oregonstate.edu/debian unstable/main armhf libboost-iostreams1.71.0 armhf 1.71.0-6+b2 [256 kB]
Get:116 http://debian.oregonstate.edu/debian unstable/main armhf libboost-iostreams1.71-dev armhf 1.71.0-6+b2 [274 kB]
Get:117 http://debian.oregonstate.edu/debian unstable/main armhf libboost-iostreams-dev armhf 1.71.0.3 [4112 B]
Get:118 http://debian.oregonstate.edu/debian unstable/main armhf libboost-program-options1.71.0 armhf 1.71.0-6+b2 [345 kB]
Get:119 http://debian.oregonstate.edu/debian unstable/main armhf libboost-program-options1.71-dev armhf 1.71.0-6+b2 [406 kB]
Get:120 http://debian.oregonstate.edu/debian unstable/main armhf libboost-program-options-dev armhf 1.71.0.3 [4132 B]
Get:121 http://debian.oregonstate.edu/debian unstable/main armhf libboost-system-dev armhf 1.71.0.3 [4264 B]
Get:122 http://debian.oregonstate.edu/debian unstable/main armhf libgenome0 armhf 1.3.11+svn20110227.4616-2 [98.1 kB]
Get:123 http://debian.oregonstate.edu/debian unstable/main armhf libgenome-dev armhf 1.3.11+svn20110227.4616-2 [174 kB]
Get:124 http://debian.oregonstate.edu/debian unstable/main armhf libmuscle1 armhf 3.7+4565-6 [202 kB]
Get:125 http://debian.oregonstate.edu/debian unstable/main armhf libmems1 armhf 1.6.0+4725-8+b2 [557 kB]
Get:126 http://debian.oregonstate.edu/debian unstable/main armhf libmuscle-dev armhf 3.7+4565-6 [256 kB]
Get:127 http://debian.oregonstate.edu/debian unstable/main armhf libmems-dev armhf 1.6.0+4725-8+b2 [850 kB]
Get:128 http://debian.oregonstate.edu/debian unstable/main amd64 libpkgconf3 amd64 1.6.3-5+b1 [35.1 kB]
Get:129 http://debian.oregonstate.edu/debian unstable/main amd64 pkgconf amd64 1.6.3-5+b1 [41.0 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Moving old data out of the way
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Unpacking crossbuild-essential-armhf (12.8) ...
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Unpacking gettext (0.19.8.1-10) ...
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Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version
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Setting up libxml-libxml-perl (2.0134+dfsg-2) ...
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Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version
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Setting up libatomic1:armhf (10.1.0-4) ...
Setting up libboost-regex1.71.0:armhf (1.71.0-6+b2) ...
Setting up libubsan1:armhf (10.1.0-4) ...
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Setting up libboost-system1.71-dev:armhf (1.71.0-6+b2) ...
Setting up libboost-filesystem1.71-dev:armhf (1.71.0-6+b2) ...
Setting up libboost-regex1.71-dev:armhf (1.71.0-6+b2) ...
Setting up libboost-dev:armhf (1.71.0.3) ...
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Setting up libboost-program-options1.71-dev:armhf (1.71.0-6+b2) ...
Setting up libboost-system-dev:armhf (1.71.0.3) ...
Setting up libmems-dev:armhf (1.6.0+4725-8+b2) ...
Setting up libboost-iostreams-dev:armhf (1.71.0.3) ...
Setting up libboost-program-options-dev:armhf (1.71.0.3) ...
Setting up sbuild-build-depends-main-dummy:armhf (0.invalid.0) ...
Processing triggers for libc-bin (2.30-8) ...

+------------------------------------------------------------------------------+
| Check architectures                                                          |
+------------------------------------------------------------------------------+

Arch check ok (armhf included in any)

+------------------------------------------------------------------------------+
| Build environment                                                            |
+------------------------------------------------------------------------------+

Kernel: Linux 4.19.0-9-amd64 #1 SMP Debian 4.19.118-2 (2020-04-29) amd64 (x86_64)
Toolchain package versions: binutils_2.34-8 dpkg-dev_1.20.3 g++-9_9.3.0-14 gcc-9_9.3.0-14 libc6-dev_2.30-8 libstdc++-9-dev_9.3.0-14 libstdc++-9-dev-armhf-cross_9.3.0-13cross1 libstdc++6_10.1.0-4 libstdc++6-armhf-cross_10.1.0-3cross1 linux-libc-dev_5.7.6-1
Package versions: adduser_3.118 apt_2.1.6 autoconf_2.69-11.1 automake_1:1.16.2-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-8 binutils-arm-linux-gnueabihf_2.34-8 binutils-common_2.34-8 binutils-x86-64-linux-gnu_2.34-8 bsdextrautils_2.35.2-6 bsdutils_1:2.35.2-6 build-essential_12.8 bzip2_1.0.8-3 coreutils_8.32-2 cpp_4:9.2.1-3.1 cpp-8_8.4.0-4 cpp-9_9.3.0-14 cpp-9-arm-linux-gnueabihf_9.3.0-13cross1 cpp-arm-linux-gnueabihf_4:9.2.1-3.1 cross-config_2.6.15-3 crossbuild-essential-armhf_12.8 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13.1 debian-archive-keyring_2019.1 debianutils_4.11 dh-autoreconf_19 dh-strip-nondeterminism_1.8.1-1 diffutils_1:3.7-3 dmsetup_2:1.02.167-1+b1 dpkg_1.20.3 dpkg-cross_2.6.15-3 dpkg-dev_1.20.3 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.24-1 fdisk_2.35.2-6 file_1:5.38-5 findutils_4.7.0-1 g++_4:9.2.1-3.1 g++-9_9.3.0-14 g++-9-arm-linux-gnueabihf_9.3.0-13cross1 g++-arm-linux-gnueabihf_4:9.2.1-3.1 gcc_4:9.2.1-3.1 gcc-10-base_10.1.0-4 gcc-10-cross-base_10.1.0-3cross1 gcc-8-base_8.4.0-4 gcc-9_9.3.0-14 gcc-9-arm-linux-gnueabihf_9.3.0-13cross1 gcc-9-arm-linux-gnueabihf-base_9.3.0-13cross1 gcc-9-base_9.3.0-14 gcc-9-cross-base_9.3.0-13cross1 gcc-arm-linux-gnueabihf_4:9.2.1-3.1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpgv_2.2.20-1 grep_3.4-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 icu-devtools_67.1-2 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-8 libapt-pkg5.0_1.8.4 libapt-pkg6.0_2.1.6 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.2 libasan5_9.3.0-14 libasan5-armhf-cross_9.3.0-13cross1 libatomic1_10.1.0-4 libatomic1-armhf-cross_10.1.0-3cross1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3 libaudit1_1:2.8.5-3+b1 libbinutils_2.34-8 libblkid1_2.35.2-6 libboost-dev_1.71.0.3 libboost-filesystem-dev_1.71.0.3 libboost-filesystem1.71-dev_1.71.0-6+b2 libboost-filesystem1.71.0_1.71.0-6+b2 libboost-iostreams-dev_1.71.0.3 libboost-iostreams1.71-dev_1.71.0-6+b2 libboost-iostreams1.71.0_1.71.0-6+b2 libboost-program-options-dev_1.71.0.3 libboost-program-options1.71-dev_1.71.0-6+b2 libboost-program-options1.71.0_1.71.0-6+b2 libboost-regex1.71-dev_1.71.0-6+b2 libboost-regex1.71.0_1.71.0-6+b2 libboost-system-dev_1.71.0.3 libboost-system1.71-dev_1.71.0-6+b2 libboost-system1.71.0_1.71.0-6+b2 libboost1.71-dev_1.71.0-6+b2 libbz2-1.0_1.0.8-3 libc-bin_2.30-8 libc-dev-bin_2.30-8 libc6_2.30-8 libc6-armhf-cross_2.30-2cross1 libc6-dev_2.30-8 libc6-dev-armhf-cross_2.30-2cross1 libcap-ng0_0.7.9-2.2 libcc1-0_10.1.0-4 libcom-err2_1.45.6-1 libconfig-auto-perl_0.44-1 libconfig-inifiles-perl_3.000003-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.16-1 libcrypt1_1:4.4.16-1 libcryptsetup12_2:2.3.3-1 libctf-nobfd0_2.34-8 libctf0_2.34-8 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.252 libdebhelper-perl_13.1 libdebian-dpkgcross-perl_2.6.15-3 libdevmapper1.02.1_2:1.02.167-1+b1 libdpkg-perl_1.20.3 libelf1_0.176-1.1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libfdisk1_2.35.2-6 libffi6_3.2.1-9 libffi7_3.3-4 libfile-homedir-perl_1.004-1 libfile-stripnondeterminism-perl_1.8.1-1 libfile-which-perl_1.23-1 libgcc-9-dev_9.3.0-14 libgcc-9-dev-armhf-cross_9.3.0-13cross1 libgcc-s1_10.1.0-4 libgcc-s1-armhf-cross_10.1.0-3cross1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgenome-dev_1.3.11+svn20110227.4616-2 libgenome0_1.3.11+svn20110227.4616-2 libglib2.0-0_2.64.3-1 libgmp10_2:6.2.0+dfsg-6 libgnutls30_3.6.14-2 libgomp1_10.1.0-4 libgomp1-armhf-cross_10.1.0-3cross1 libgpg-error0_1.38-1 libhogweed4_3.5.1+really3.4.1-1 libhogweed5_3.5.1+really3.5.1-2 libicu-dev_67.1-2 libicu67_67.1-2 libidn2-0_2.3.0-1 libio-string-perl_1.08-3 libisl19_0.20-2 libisl22_0.22.1-1 libitm1_10.1.0-4 libjson-c4_0.13.1+dfsg-9 liblocale-gettext-perl_1.07-4 liblsan0_10.1.0-4 liblz4-1_1.9.2-2 liblzma5_5.2.4-1+b1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmems-dev_1.6.0+4725-8+b2 libmems1_1.6.0+4725-8+b2 libmount1_2.35.2-6 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libmpx2_8.4.0-4 libmuscle-dev_3.7+4565-6 libmuscle1_3.7+4565-6 libncursesw6_6.2-1 libnettle6_3.5.1+really3.4.1-1 libnettle7_3.5.1+really3.5.1-2 libp11-kit0_0.23.20-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-13 libperl5.28_5.28.1-6 libperl5.30_5.30.3-4 libpipeline1_1.5.2-2 libpkgconf3_1.6.3-5+b1 libquadmath0_10.1.0-4 libseccomp2_2.4.3-1+b1 libselinux1_3.0-1+b3 libsemanage-common_3.0-1 libsemanage1_3.0-1+b3 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.35.2-6 libss2_1.45.6-1 libssl1.1_1.1.1g-1 libstdc++-9-dev_9.3.0-14 libstdc++-9-dev-armhf-cross_9.3.0-13cross1 libstdc++6_10.1.0-4 libstdc++6-armhf-cross_10.1.0-3cross1 libsub-override-perl_0.09-2 libsystemd0_245.6-1 libtasn1-6_4.16.0-2 libtinfo6_6.2-1 libtool_2.4.6-14 libtsan0_10.1.0-4 libubsan1_10.1.0-4 libubsan1-armhf-cross_10.1.0-3cross1 libuchardet0_0.0.7-1 libudev1_245.6-1 libunistring2_0.9.10-4 libuuid1_2.35.2-6 libxml-libxml-perl_2.0134+dfsg-2 libxml-namespacesupport-perl_1.12-1 libxml-sax-base-perl_1.09-1 libxml-sax-perl_1.02+dfsg-1 libxml-simple-perl_2.25-1 libxml2_2.9.10+dfsg-5+b1 libyaml-perl_1.30-1 libzstd1_1.4.5+dfsg-3 linux-libc-dev_5.7.6-1 linux-libc-dev-armhf-cross_5.4.19-1cross1 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0 m4_1.4.18-4 make_4.3-4 man-db_2.9.3-1 mawk_1.3.4.20200120-2 mount_2.35.2-6 ncurses-base_6.2-1 ncurses-bin_6.2-1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.3-4 perl-base_5.30.3-4 perl-modules-5.28_5.28.1-6 perl-modules-5.30_5.30.3-4 pkgconf_1.6.3-5+b1 po-debconf_1.0.21 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-3 tar_1.30+dfsg-7 tzdata_2020a-1 ucf_3.0043 util-linux_2.35.2-6 xz-utils_5.2.4-1+b1 zlib1g_1:1.2.11.dfsg-2

+------------------------------------------------------------------------------+
| Build                                                                        |
+------------------------------------------------------------------------------+


Unpack source
-------------

-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256

Format: 3.0 (quilt)
Source: progressivemauve
Binary: progressivemauve
Architecture: any
Version: 1.2.0+4713+dfsg-4
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Homepage: http://darlinglab.org/mauve/user-guide/mauvealigner.html
Standards-Version: 4.2.1
Vcs-Browser: https://salsa.debian.org/med-team/progressivemauve
Vcs-Git: https://salsa.debian.org/med-team/progressivemauve.git
Testsuite: autopkgtest
Build-Depends: debhelper (>= 11~), pkgconf, libboost-dev, libboost-system-dev, libboost-filesystem-dev, libboost-program-options-dev, libboost-iostreams-dev, libgenome-dev, libmuscle-dev, libmems-dev
Package-List:
 progressivemauve deb science optional arch=any
Checksums-Sha1:
 3b09d613f64fa9237d8c0566c02823136a253208 96084 progressivemauve_1.2.0+4713+dfsg.orig.tar.xz
 c360aa1123bf7f17116c87a3916002507ffbb506 17704 progressivemauve_1.2.0+4713+dfsg-4.debian.tar.xz
Checksums-Sha256:
 e5f43b4e5af5d6ddb6d4bac91a919d0d2706ff42f51a4209d2d15be8a12c3772 96084 progressivemauve_1.2.0+4713+dfsg.orig.tar.xz
 967fc3ede9cabed5d226f680a195cf8381bfe298c66cef6fe307407af99d5daf 17704 progressivemauve_1.2.0+4713+dfsg-4.debian.tar.xz
Files:
 b9f9a0377aeccaa353cc4a491452003a 96084 progressivemauve_1.2.0+4713+dfsg.orig.tar.xz
 0bd30eeadd7194b9b4c88965367c6cc5 17704 progressivemauve_1.2.0+4713+dfsg-4.debian.tar.xz

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gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Tue Dec  4 09:10:58 2018 UTC
gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv:                issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./progressivemauve_1.2.0+4713+dfsg-4.dsc
dpkg-source: info: extracting progressivemauve in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking progressivemauve_1.2.0+4713+dfsg.orig.tar.xz
dpkg-source: info: unpacking progressivemauve_1.2.0+4713+dfsg-4.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying fix_build.patch
dpkg-source: info: applying do_not_build_static_binaries.patch
dpkg-source: info: applying spelling.patch
dpkg-source: info: applying use-native-getopt.patch
dpkg-source: info: applying adapt-to-unversioned-libs.patch
dpkg-source: info: applying fix_FTBFS_boost1.67.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.armhf
DEB_BUILD_OPTIONS=nocheck
HOME=/sbuild-nonexistent
LANG=en_US.UTF-8
LC_ALL=C.UTF-8
LOGNAME=helmut
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=unstable-amd64-sbuild
SCHROOT_CHROOT_NAME=unstable-amd64-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=1003
SCHROOT_GROUP=helmut
SCHROOT_SESSION_ID=unstable-amd64-sbuild-44685955-2c0f-4654-9af6-ca26d015b0f7
SCHROOT_UID=1003
SCHROOT_USER=helmut
SHELL=/bin/sh
USER=helmut

dpkg-buildpackage
-----------------

Command: dpkg-buildpackage -aarmhf -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1
dpkg-buildpackage: info: source package progressivemauve
dpkg-buildpackage: info: source version 1.2.0+4713+dfsg-4
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Andreas Tille <tille@debian.org>
dpkg-architecture: warning: specified GNU system type arm-linux-gnueabihf 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 armhf
 fakeroot debian/rules clean
dh clean
   dh_clean
 debian/rules build-arch
dh build-arch
   dh_update_autotools_config -a
   dh_autoreconf -a
configure.ac:21: installing 'config/compile'
configure.ac:9: installing 'config/config.guess'
configure.ac:9: installing 'config/config.sub'
configure.ac:11: installing 'config/install-sh'
configure.ac:11: installing 'config/missing'
Makefile.am: installing './INSTALL'
src/Makefile.am:12: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS')
src/Makefile.am: installing 'config/depcomp'
src/Makefile.am:51: warning: variable 'EXTRA_mauveStatic_SOURCES' is defined but no program or
src/Makefile.am:51: library has 'mauveStatic' as canonical name (possible typo)
src/Makefile.am:49: warning: variable 'mauveStatic_SOURCES' is defined but no program or
src/Makefile.am:49: library has 'mauveStatic' as canonical name (possible typo)
src/Makefile.am:160: warning: variable 'progressiveMauveStatic_SOURCES' is defined but no program or
src/Makefile.am:160: library has 'progressiveMauveStatic' as canonical name (possible typo)
src/Makefile.am:50: warning: variable 'mauveStatic_LDADD' is defined but no program or
src/Makefile.am:50: library has 'mauveStatic' as canonical name (possible typo)
src/Makefile.am:161: warning: variable 'progressiveMauveStatic_LDADD' is defined but no program or
src/Makefile.am:161: library has 'progressiveMauveStatic' as canonical name (possible typo)
src/Makefile.am:52: warning: variable 'mauveStatic_DEPENDENCIES' is defined but no program or
src/Makefile.am:52: library has 'mauveStatic' as canonical name (possible typo)
   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-gnueabihf --libexecdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --host=arm-linux-gnueabihf
configure: loading site script /etc/dpkg-cross/cross-config.armhf
checking build system type... x86_64-pc-linux-gnu
checking host system type... arm-unknown-linux-gnueabihf
checking target system type... arm-unknown-linux-gnueabihf
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for arm-linux-gnueabihf-strip... arm-linux-gnueabihf-strip
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking for arm-linux-gnueabihf-gcc... arm-linux-gnueabihf-gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... yes
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether arm-linux-gnueabihf-gcc accepts -g... yes
checking for arm-linux-gnueabihf-gcc option to accept ISO C89... none needed
checking whether arm-linux-gnueabihf-gcc understands -c and -o together... yes
checking whether make supports the include directive... yes (GNU style)
checking dependency style of arm-linux-gnueabihf-gcc... none
checking for arm-linux-gnueabihf-g++... arm-linux-gnueabihf-g++
checking whether we are using the GNU C++ compiler... yes
checking whether arm-linux-gnueabihf-g++ accepts -g... yes
checking dependency style of arm-linux-gnueabihf-g++... none
checking whether ln -s works... yes
checking how to run the C preprocessor... arm-linux-gnueabihf-gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for getopt_long... yes
checking for getopt... yes
checking for arm-linux-gnueabihf-pkg-config... /usr/bin/arm-linux-gnueabihf-pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for DEPS... yes
checking for an ANSI C-conforming const... yes
checking for inline... inline
checking whether time.h and sys/time.h may both be included... yes
checking for memset... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking libintl.h usability... yes
checking libintl.h presence... yes
checking for libintl.h... yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking for strings.h... (cached) yes
checking for unistd.h... (cached) yes
checking wchar.h usability... yes
checking wchar.h presence... yes
checking for wchar.h... yes
checking for stdlib.h... (cached) yes
checking for GNU libc compatible malloc... (cached) yes
checking for stdbool.h that conforms to C99... yes
checking for _Bool... yes
checking for size_t... yes
checking whether arm-linux-gnueabihf-gcc needs -traditional... no
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating src/config.h
config.status: executing depfiles commands
   dh_auto_build -a
	make -j1
make[1]: Entering directory '/<<PKGBUILDDIR>>'
Making all in src
make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
make  all-am
make[3]: Entering directory '/<<PKGBUILDDIR>>/src'
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mauveAligner.o mauveAligner.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from mauveAligner.cpp:30:
/usr/arm-linux-gnueabihf/include/c++/9/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 \
      |  ^~~~~~~
mauveAligner.cpp:413:48: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  413 |   cerr << "mauveAligner " << " build date " << __DATE__ << " at " << __TIME__ << endl;
      |                                                ^~~~~~~~
mauveAligner.cpp:413:70: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time]
  413 |   cerr << "mauveAligner " << " build date " << __DATE__ << " at " << __TIME__ << endl;
      |                                                                      ^~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from mauveAligner.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from mauveAligner.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/MatchFinder.h:17,
                 from /usr/include/libMems/MemHash.h:20,
                 from mauveAligner.cpp:22:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from mauveAligner.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from mauveAligner.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Match.h:20,
                 from /usr/include/libMems/MatchFinder.h:17,
                 from /usr/include/libMems/MemHash.h:20,
                 from mauveAligner.cpp:22:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from mauveAligner.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from mauveAligner.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize    -Wl,-z,relro -Wl,-z,now -o mauveAligner mauveAligner.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o scoreAlignment.o scoreAlignment.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/MatchList.h:18,
                 from scoreAlignment.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::pair<long long unsigned int, long long unsigned int>&}; _Tp = std::pair<long long unsigned int, long long unsigned int>; _Alloc = std::allocator<std::pair<long long unsigned int, long long unsigned int> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long unsigned int, long long unsigned int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, long long unsigned int>*, std::vector<std::pair<long long unsigned int, long long unsigned int> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long unsigned int, long long unsigned int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, long long unsigned int>*, std::vector<std::pair<long long unsigned int, long long unsigned int> > >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/MatchList.h:18,
                 from scoreAlignment.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘virtual void VectorIntervalMap::add(gnSeqI, gnSeqI)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, long long unsigned int>*, std::vector<std::pair<long long unsigned int, long long unsigned int> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/MatchList.h:18,
                 from scoreAlignment.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/MatchList.h:18,
                 from scoreAlignment.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/MatchList.h:22,
                 from scoreAlignment.cpp:13:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/MatchList.h:18,
                 from scoreAlignment.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/MatchList.h:18,
                 from scoreAlignment.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Match.h:20,
                 from /usr/include/libMems/MatchList.h:22,
                 from scoreAlignment.cpp:13:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/MatchList.h:18,
                 from scoreAlignment.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/MatchList.h:18,
                 from scoreAlignment.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/MatchList.h:18,
                 from scoreAlignment.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o scoreAlignment scoreAlignment.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o uniqueMerCount.o uniqueMerCount.cpp
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o uniqueMerCount uniqueMerCount.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o toRawSequence.o toRawSequence.cpp
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o toRawSequence toRawSequence.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mfa2xmfa.o mfa2xmfa.cpp
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o mfa2xmfa mfa2xmfa.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o addUnalignedIntervals.o addUnalignedIntervals.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from addUnalignedIntervals.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from addUnalignedIntervals.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from addUnalignedIntervals.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from addUnalignedIntervals.cpp:1:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from addUnalignedIntervals.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from addUnalignedIntervals.cpp:1:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from addUnalignedIntervals.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from addUnalignedIntervals.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from addUnalignedIntervals.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o addUnalignedIntervals addUnalignedIntervals.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o toMultiFastA.o toMultiFastA.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from toMultiFastA.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from toMultiFastA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from toMultiFastA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from toMultiFastA.cpp:1:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from toMultiFastA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from toMultiFastA.cpp:1:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from toMultiFastA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from toMultiFastA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o toMultiFastA toMultiFastA.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o getAlignmentWindows.o getAlignmentWindows.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from getAlignmentWindows.cpp:14:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from getAlignmentWindows.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from getAlignmentWindows.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from getAlignmentWindows.cpp:13:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from getAlignmentWindows.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from getAlignmentWindows.cpp:13:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from getAlignmentWindows.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from getAlignmentWindows.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from getAlignmentWindows.cpp:13:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o getAlignmentWindows getAlignmentWindows.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o uniquifyTrees.o uniquifyTrees.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/PhyloTree.h:8,
                 from uniquifyTrees.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const TreeNode&}; _Tp = TreeNode; _Alloc = std::allocator<TreeNode>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<TreeNode, std::allocator<TreeNode> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/PhyloTree.h:8,
                 from uniquifyTrees.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void PhyloTree<T>::readTree(std::istream&) [with T = TreeNode]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o uniquifyTrees uniquifyTrees.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o toGrimmFormat.o toGrimmFormat.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from toGrimmFormat.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from toGrimmFormat.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from toGrimmFormat.cpp:1:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from toGrimmFormat.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from toGrimmFormat.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from toGrimmFormat.cpp:1:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from toGrimmFormat.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from toGrimmFormat.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In function ‘int main(int, char**)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o toGrimmFormat toGrimmFormat.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mauveToXMFA.o mauveToXMFA.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from mauveToXMFA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from mauveToXMFA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from mauveToXMFA.cpp:1:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from mauveToXMFA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from mauveToXMFA.cpp:1:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from mauveToXMFA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from mauveToXMFA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o mauveToXMFA mauveToXMFA.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o stripGapColumns.o stripGapColumns.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from stripGapColumns.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from stripGapColumns.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from stripGapColumns.cpp:1:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from stripGapColumns.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from stripGapColumns.cpp:1:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from stripGapColumns.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from stripGapColumns.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In function ‘int main(int, char**)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o stripGapColumns stripGapColumns.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o progressiveMauve.o progressiveMauve.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from progressiveMauve.cpp:26:
/usr/arm-linux-gnueabihf/include/c++/9/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 \
      |  ^~~~~~~
progressiveMauve.cpp:417:52: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
  417 |   cerr << "progressiveMauve " << " build date " << __DATE__ << " at " << __TIME__ << endl;
      |                                                    ^~~~~~~~
progressiveMauve.cpp:417:74: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time]
  417 |   cerr << "progressiveMauve " << " build date " << __DATE__ << " at " << __TIME__ << endl;
      |                                                                          ^~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/Matrix.h:19,
                 from progressiveMauve.cpp:17:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/Matrix.h:19,
                 from progressiveMauve.cpp:17:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/MatchFinder.h:17,
                 from /usr/include/libMems/MemHash.h:20,
                 from progressiveMauve.cpp:21:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/Matrix.h:19,
                 from progressiveMauve.cpp:17:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<long long int, long long int>}; _Tp = std::pair<long long int, long long int>; _Alloc = std::allocator<std::pair<long long int, long long int> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long int, long long int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘void applyBackbone(mems::IntervalList&, std::string&, std::string&, size_t, double, double, double)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/Matrix.h:19,
                 from progressiveMauve.cpp:17:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Match.h:20,
                 from /usr/include/libMems/MatchFinder.h:17,
                 from /usr/include/libMems/MemHash.h:20,
                 from progressiveMauve.cpp:21:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/Matrix.h:19,
                 from progressiveMauve.cpp:17:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/Matrix.h:19,
                 from progressiveMauve.cpp:17:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/Matrix.h:19,
                 from progressiveMauve.cpp:17:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o UniqueMatchFinder.o UniqueMatchFinder.cpp
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security  -Wl,-z,relro -Wl,-z,now -o progressiveMauve progressiveMauve.o UniqueMatchFinder.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o extractBCITrees.o extractBCITrees.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/PhyloTree.h:8,
                 from extractBCITrees.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, double>}; _Tp = std::pair<std::__cxx11::basic_string<char>, double>; _Alloc = std::allocator<std::pair<std::__cxx11::basic_string<char>, double> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<std::__cxx11::basic_string<char>, double> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::pair<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, double>&}; _Tp = std::pair<std::__cxx11::basic_string<char>, double>; _Alloc = std::allocator<std::pair<std::__cxx11::basic_string<char>, double> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<std::__cxx11::basic_string<char>, double> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’} changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const TreeNode&}; _Tp = TreeNode; _Alloc = std::allocator<TreeNode>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<TreeNode, std::allocator<TreeNode> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/PhyloTree.h:8,
                 from extractBCITrees.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void PhyloTree<T>::readTree(std::istream&) [with T = TreeNode]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from extractBCITrees.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >; _Compare = __gnu_cxx::__ops::_Val_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
 1820 |     __unguarded_linear_insert(_RandomAccessIterator __last,
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
 1839 |     __insertion_sort(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61,
                 from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from extractBCITrees.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >; _Distance = int; _Tp = std::pair<std::__cxx11::basic_string<char>, double>; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
  214 |     __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
      |     ^~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
  326 |     __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last,
      |     ^~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from extractBCITrees.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
 1939 |     __introsort_loop(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
 1953 |    std::__introsort_loop(__cut, __last, __depth_limit, __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
 1671 |       std::__make_heap(__first, __middle, __comp);
      |       ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/PhyloTree.h:8,
                 from extractBCITrees.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘int main(int, char**)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from extractBCITrees.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/PhyloTree.h:8,
                 from extractBCITrees.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<std::__cxx11::basic_string<char>, double>*, std::vector<std::pair<std::__cxx11::basic_string<char>, double> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o extractBCITrees extractBCITrees.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o createBackboneMFA.o createBackboneMFA.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from createBackboneMFA.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from createBackboneMFA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from createBackboneMFA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from createBackboneMFA.cpp:1:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from createBackboneMFA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from createBackboneMFA.cpp:1:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from createBackboneMFA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libMems/AbstractMatch.h:17,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from createBackboneMFA.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o createBackboneMFA createBackboneMFA.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o repeatoire.o repeatoire.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from repeatoire.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from repeatoire.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from repeatoire.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘virtual void mems::MatchProjectionAdapter::GetColumn(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&) const’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from repeatoire.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from repeatoire.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from repeatoire.cpp:2:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from repeatoire.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const GappedMatchRecord&}; _Tp = GappedMatchRecord; _Alloc = std::allocator<GappedMatchRecord>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<GappedMatchRecord, std::allocator<GappedMatchRecord> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<GappedMatchRecord*, std::vector<GappedMatchRecord, std::allocator<GappedMatchRecord> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<long long int, UngappedMatchRecord*>}; _Tp = std::pair<long long int, UngappedMatchRecord*>; _Alloc = std::allocator<std::pair<long long int, UngappedMatchRecord*> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long int, UngappedMatchRecord*> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from repeatoire.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In function ‘void writeXmfa(mems::MatchList&, std::vector<GappedMatchRecord*>&, const string&)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<GappedMatchRecord*, std::vector<GappedMatchRecord, std::allocator<GappedMatchRecord> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In function ‘void writeXML(mems::MatchList&, std::vector<GappedMatchRecord*>&, const string&)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<GappedMatchRecord*, std::vector<GappedMatchRecord, std::allocator<GappedMatchRecord> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from repeatoire.cpp:2:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from repeatoire.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from repeatoire.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__move_median_to_first(_Iterator, _Iterator, _Iterator, _Iterator, _Compare) [with _Iterator = __gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
   78 |     __move_median_to_first(_Iterator __result,_Iterator __a, _Iterator __b,
      |     ^~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >; _Compare = __gnu_cxx::__ops::_Val_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
 1820 |     __unguarded_linear_insert(_RandomAccessIterator __last,
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
 1839 |     __insertion_sort(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__move_median_to_first(_Iterator, _Iterator, _Iterator, _Iterator, _Compare) [with _Iterator = __gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
   78 |     __move_median_to_first(_Iterator __result,_Iterator __a, _Iterator __b,
      |     ^~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >; _Compare = __gnu_cxx::__ops::_Val_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1820 |     __unguarded_linear_insert(_RandomAccessIterator __last,
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1839 |     __insertion_sort(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61,
                 from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from repeatoire.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >; _Distance = int; _Tp = std::pair<long long int, UngappedMatchRecord*>; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
  214 |     __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
      |     ^~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from repeatoire.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
 1939 |     __introsort_loop(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1920:34: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
 1920 |       std::__move_median_to_first(__first, __first + 1, __mid, __last - 1,
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1921 |       __comp);
      |       ~~~~~~~                     
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1920:34: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
 1953 |    std::__introsort_loop(__cut, __last, __depth_limit, __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61,
                 from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from repeatoire.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >; _Distance = int; _Tp = std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
  214 |     __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
      |     ^~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from repeatoire.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1939 |     __introsort_loop(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1920:34: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1920 |       std::__move_median_to_first(__first, __first + 1, __mid, __last - 1,
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1921 |       __comp);
      |       ~~~~~~~                     
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1920:34: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1953 |    std::__introsort_loop(__cut, __last, __depth_limit, __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from repeatoire.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<MatchRecord>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from repeatoire.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘int main(int, char**)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from repeatoire.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, UngappedMatchRecord*>*, std::vector<std::pair<long long int, UngappedMatchRecord*> > >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> >*, std::vector<std::pair<long long unsigned int, std::pair<MatchRecord*, unsigned int> > > >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o repeatoire repeatoire.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE    
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o alignmentProjector.o alignmentProjector.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from /usr/include/libMems/ProgressiveAligner.h:21,
                 from alignmentProjector.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘virtual void mems::MatchProjectionAdapter::GetColumn(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&) const’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from alignmentProjector.cpp:11:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::LCB&}; _Tp = mems::LCB; _Alloc = std::allocator<mems::LCB>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::LCB>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::LCB>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from alignmentProjector.cpp:11:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from alignmentProjector.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1839 |     __insertion_sort(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from alignmentProjector.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >; _Compare = __gnu_cxx::__ops::_Val_comp_iter<mems::LCBLeftComparator>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1820 |     __unguarded_linear_insert(_RandomAccessIterator __last,
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<mems::LCBLeftComparator>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1839 |     __insertion_sort(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >; _Compare = __gnu_cxx::__ops::_Val_comp_iter<mems::LCBIDComparator>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1820 |     __unguarded_linear_insert(_RandomAccessIterator __last,
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<mems::LCBIDComparator>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1839 |     __insertion_sort(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61,
                 from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from alignmentProjector.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >; _Distance = int; _Tp = mems::LCB; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<mems::LCBLeftComparator>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
  214 |     __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
      |     ^~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from alignmentProjector.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<mems::LCBLeftComparator>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1939 |     __introsort_loop(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1953 |    std::__introsort_loop(__cut, __last, __depth_limit, __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61,
                 from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from alignmentProjector.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >; _Distance = int; _Tp = mems::LCB; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<mems::LCBIDComparator>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
  214 |     __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
      |     ^~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from alignmentProjector.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<mems::LCBIDComparator>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1939 |     __introsort_loop(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1953 |    std::__introsort_loop(__cut, __last, __depth_limit, __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In function ‘void mems::computeLCBAdjacencies_v3(const std::vector<MatchPtrType>&, std::vector<double>&, std::vector<mems::LCB>&) [with MatchVector = std::vector<mems::MatchProjectionAdapter*>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from alignmentProjector.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::LCB*, std::vector<mems::LCB> >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61,
                 from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from alignmentProjector.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >; _Distance = int; _Tp = long long unsigned int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
  214 |     __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
      |     ^~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from alignmentProjector.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1939 |     __introsort_loop(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1953 |    std::__introsort_loop(__cut, __last, __depth_limit, __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void mems::IdentifyBreakpoints(MatchVector&, std::vector<long long unsigned int>&) [with MatchVector = std::vector<mems::MatchProjectionAdapter*>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from alignmentProjector.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o alignmentProjector alignmentProjector.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o stripSubsetLCBs.o stripSubsetLCBs.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from stripSubsetLCBs.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const boost::tuples::tuple<unsigned int, long long unsigned int, long long unsigned int, std::vector<unsigned int, std::allocator<unsigned int> >, boost::tuples::null_type, boost::tuples::null_type, boost::tuples::null_type, boost::tuples::null_type, boost::tuples::null_type, boost::tuples::null_type>&}; _Tp = boost::tuples::tuple<unsigned int, long long unsigned int, long long unsigned int, std::vector<unsigned int> >; _Alloc = std::allocator<boost::tuples::tuple<unsigned int, long long unsigned int, long long unsigned int, std::vector<unsigned int> > >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<boost::tuples::tuple<unsigned int, long long unsigned int, long long unsigned int, std::vector<unsigned int> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, long long unsigned int, long long unsigned int, std::vector<unsigned int> >*, std::vector<boost::tuples::tuple<unsigned int, long long unsigned int, long long unsigned int, std::vector<unsigned int> > > >’} changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from stripSubsetLCBs.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from stripSubsetLCBs.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from stripSubsetLCBs.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from stripSubsetLCBs.cpp:12:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from stripSubsetLCBs.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from stripSubsetLCBs.cpp:12:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from stripSubsetLCBs.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from stripSubsetLCBs.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from stripSubsetLCBs.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In function ‘int main(int, char**)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, long long unsigned int, long long unsigned int, std::vector<unsigned int> >*, std::vector<boost::tuples::tuple<unsigned int, long long unsigned int, long long unsigned int, std::vector<unsigned int> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o stripSubsetLCBs stripSubsetLCBs.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o projectAndStrip.o projectAndStrip.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from projectAndStrip.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from projectAndStrip.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from projectAndStrip.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from projectAndStrip.cpp:12:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from projectAndStrip.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from projectAndStrip.cpp:12:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from projectAndStrip.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1839 |     __insertion_sort(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from projectAndStrip.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from projectAndStrip.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61,
                 from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from projectAndStrip.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >; _Distance = int; _Tp = long long unsigned int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
  214 |     __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
      |     ^~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from projectAndStrip.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1939 |     __introsort_loop(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1953 |    std::__introsort_loop(__cut, __last, __depth_limit, __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void mems::IdentifyBreakpoints(MatchVector&, std::vector<long long unsigned int>&) [with MatchVector = std::vector<mems::GappedAlignment*>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from projectAndStrip.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o projectAndStrip projectAndStrip.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o makeBadgerMatrix.o makeBadgerMatrix.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from makeBadgerMatrix.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from makeBadgerMatrix.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from makeBadgerMatrix.cpp:10:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from makeBadgerMatrix.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from makeBadgerMatrix.cpp:10:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from makeBadgerMatrix.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from makeBadgerMatrix.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from makeBadgerMatrix.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o makeBadgerMatrix makeBadgerMatrix.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o randomGeneSample.o randomGeneSample.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from randomGeneSample.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from randomGeneSample.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from randomGeneSample.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from randomGeneSample.cpp:12:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from randomGeneSample.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<long long int, long long int>}; _Tp = std::pair<long long int, long long int>; _Alloc = std::allocator<std::pair<long long int, long long int> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long int, long long int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long int, long long int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’} changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘void mems::readBackboneSeqFile(std::istream&, std::vector<std::vector<std::pair<long long int, long long int> > >&)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from randomGeneSample.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from randomGeneSample.cpp:12:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from randomGeneSample.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from randomGeneSample.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from randomGeneSample.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o randomGeneSample randomGeneSample.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o getOrthologList.o getOrthologList.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from getOrthologList.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from getOrthologList.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from getOrthologList.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from getOrthologList.cpp:12:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from getOrthologList.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<long long int, long long int>}; _Tp = std::pair<long long int, long long int>; _Alloc = std::allocator<std::pair<long long int, long long int> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long int, long long int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long int, long long int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’} changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<long long unsigned int, unsigned int>}; _Tp = std::pair<long long unsigned int, unsigned int>; _Alloc = std::allocator<std::pair<long long unsigned int, unsigned int> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long unsigned int, unsigned int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’} changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘void mems::readBackboneSeqFile(std::istream&, std::vector<std::vector<std::pair<long long int, long long int> > >&)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from getOrthologList.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from getOrthologList.cpp:12:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from getOrthologList.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from getOrthologList.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__move_median_to_first(_Iterator, _Iterator, _Iterator, _Iterator, _Compare) [with _Iterator = __gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
   78 |     __move_median_to_first(_Iterator __result,_Iterator __a, _Iterator __b,
      |     ^~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:78:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >; _Compare = __gnu_cxx::__ops::_Val_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
 1820 |     __unguarded_linear_insert(_RandomAccessIterator __last,
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
 1839 |     __insertion_sort(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61,
                 from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from getOrthologList.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >; _Distance = int; _Tp = std::pair<long long unsigned int, unsigned int>; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
  214 |     __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
      |     ^~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from getOrthologList.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
 1939 |     __introsort_loop(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1920:34: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
 1920 |       std::__move_median_to_first(__first, __first + 1, __mid, __last - 1,
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1921 |       __comp);
      |       ~~~~~~~                     
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1920:34: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
 1953 |    std::__introsort_loop(__cut, __last, __depth_limit, __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from getOrthologList.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from getOrthologList.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from getOrthologList.cpp:7:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘int main(int, char**)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from getOrthologList.cpp:8:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long unsigned int, unsigned int>*, std::vector<std::pair<long long unsigned int, unsigned int> > >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o getOrthologList getOrthologList.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o bbFilter.o bbFilter.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from /usr/include/libMems/Backbone.h:24,
                 from bbFilter.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbFilter.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<long long int, long long int>}; _Tp = std::pair<long long int, long long int>; _Alloc = std::allocator<std::pair<long long int, long long int> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long int, long long int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘void mems::readBackboneSeqFile(std::istream&, std::vector<std::vector<std::pair<long long int, long long int> > >&)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o bbFilter bbFilter.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o bbAnalyze.o bbAnalyze.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from /usr/include/libMems/Backbone.h:24,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<long long int, long long int>}; _Tp = std::pair<long long int, long long int>; _Alloc = std::allocator<std::pair<long long int, long long int> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long int, long long int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<unsigned int, mems::UngappedLocalAlignment<mems::HybridAbstractMatch<2, std::allocator<long long int>, std::allocator<unsigned int> > > >}; _Tp = std::pair<unsigned int, mems::UngappedLocalAlignment<mems::HybridAbstractMatch<> > >; _Alloc = std::allocator<std::pair<unsigned int, mems::UngappedLocalAlignment<mems::HybridAbstractMatch<> > > >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<unsigned int, mems::UngappedLocalAlignment<mems::HybridAbstractMatch<> > > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<unsigned int, mems::UngappedLocalAlignment<mems::HybridAbstractMatch<> > >*, std::vector<std::pair<unsigned int, mems::UngappedLocalAlignment<mems::HybridAbstractMatch<> > > > >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {genome::gnLocation}; _Tp = genome::gnLocation; _Alloc = std::allocator<genome::gnLocation>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<genome::gnLocation>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘void mems::readBackboneSeqFile(std::istream&, std::vector<std::vector<std::pair<long long int, long long int> > >&)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘void mems::readBackboneColsFile(std::istream&, std::vector<std::pair<unsigned int, mems::UngappedLocalAlignment<mems::HybridAbstractMatch<> > > >&)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<unsigned int, mems::UngappedLocalAlignment<mems::HybridAbstractMatch<> > >*, std::vector<std::pair<unsigned int, mems::UngappedLocalAlignment<mems::HybridAbstractMatch<> > > > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const TreeNode&}; _Tp = TreeNode; _Alloc = std::allocator<TreeNode>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<TreeNode, std::allocator<TreeNode> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, boost::tuples::null_type, boost::tuples::null_type, boost::tuples::null_type, boost::tuples::null_type, boost::tuples::null_type>}; _Tp = boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >; _Alloc = std::allocator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/map:60,
                 from /usr/include/boost/detail/container_fwd.hpp:94,
                 from /usr/include/boost/container_hash/extensions.hpp:22,
                 from /usr/include/boost/container_hash/hash.hpp:760,
                 from /usr/include/boost/functional/hash/hash.hpp:6,
                 from /usr/include/boost/dynamic_bitset/dynamic_bitset.hpp:53,
                 from /usr/include/boost/dynamic_bitset.hpp:15,
                 from /usr/include/libMems/AbstractMatch.h:22,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h: In member function ‘std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&>, std::tuple<>}; _Key = std::__cxx11::basic_string<char>; _Val = std::pair<const std::__cxx11::basic_string<char>, double>; _KeyOfValue = std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_tree.h:2452:7: note: parameter passing for argument of type ‘std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator<std::pair<const std::__cxx11::basic_string<char>, double> >’} changed in GCC 7.1
 2452 |       _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter<AnalRowComp>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
 1820 |     __unguarded_linear_insert(_RandomAccessIterator __last,
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<AnalRowComp>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
 1839 |     __insertion_sort(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >; _Compare = __gnu_cxx::__ops::_Val_comp_iter<LocComp>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
 1820 |     __unguarded_linear_insert(_RandomAccessIterator __last,
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<LocComp>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
 1839 |     __insertion_sort(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void PhyloTree<T>::readTree(std::istream&) [with T = TreeNode]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<TreeNode*, std::vector<TreeNode, std::allocator<TreeNode> > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61,
                 from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >; _Distance = int; _Tp = boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<AnalRowComp>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
  214 |     __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
      |     ^~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<AnalRowComp>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
  326 |     __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last,
      |     ^~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<AnalRowComp>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
 1939 |     __introsort_loop(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
 1953 |    std::__introsort_loop(__cut, __last, __depth_limit, __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
 1671 |       std::__make_heap(__first, __middle, __comp);
      |       ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘void mfAnalyze(std::ofstream&, multifun_map_t&, multifun_map_t&, multifun_names_t&, double)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> >*, std::vector<boost::tuples::tuple<unsigned int, unsigned int, double, double, std::__cxx11::basic_string<char> > > >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:61,
                 from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >; _Distance = int; _Tp = genome::gnLocation; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<LocComp>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
  214 |     __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
      |     ^~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h: In function ‘void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<LocComp>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
  326 |     __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last,
      |     ^~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<LocComp>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
 1939 |     __introsort_loop(_RandomAccessIterator __first,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
 1953 |    std::__introsort_loop(__cut, __last, __depth_limit, __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
 1671 |       std::__make_heap(__first, __middle, __comp);
      |       ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘void identifyIntergenicRanges(std::vector<genome::gnSequence*>&, std::vector<std::vector<std::pair<unsigned int, unsigned int> > >&)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/algorithm:62,
                 from /usr/include/libMems/AbstractMatch.h:18,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
 1967 |    std::__introsort_loop(__first, __last,
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
 1968 |     std::__lg(__last - __first) * 2,
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 1969 |     __comp);
      |     ~~~~~~~              
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
 1884 |    std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
      |    ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<genome::gnLocation*, std::vector<genome::gnLocation> >’ changed in GCC 7.1
 1889 |  std::__insertion_sort(__first, __last, __comp);
      |  ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/map:61,
                 from /usr/include/boost/detail/container_fwd.hpp:94,
                 from /usr/include/boost/container_hash/extensions.hpp:22,
                 from /usr/include/boost/container_hash/hash.hpp:760,
                 from /usr/include/boost/functional/hash/hash.hpp:6,
                 from /usr/include/boost/dynamic_bitset/dynamic_bitset.hpp:53,
                 from /usr/include/boost/dynamic_bitset.hpp:15,
                 from /usr/include/libMems/AbstractMatch.h:22,
                 from /usr/include/libMems/SparseAbstractMatch.h:18,
                 from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from /usr/include/libMems/Backbone.h:18,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h: In function ‘void makeMultiFunCount(genome::gnSequence*, multifun_map_t&, multifun_names_t&, mems::bitset_t&)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator<std::pair<const std::__cxx11::basic_string<char>, double> >’} changed in GCC 7.1
  499 |    __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_map.h:499:8: note: parameter passing for argument of type ‘std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, double>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, double> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, double> > >::const_iterator’ {aka ‘std::_Rb_tree_const_iterator<std::pair<const std::__cxx11::basic_string<char>, double> >’} changed in GCC 7.1
  499 |    __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/Backbone.h:16,
                 from bbAnalyze.cpp:4:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o bbAnalyze bbAnalyze.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o backbone_global_to_local.o backbone_global_to_local.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from /usr/include/libMems/Backbone.h:24,
                 from backbone_global_to_local.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from backbone_global_to_local.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from backbone_global_to_local.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from backbone_global_to_local.cpp:1:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from backbone_global_to_local.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair<long long int, long long int>}; _Tp = std::pair<long long int, long long int>; _Alloc = std::allocator<std::pair<long long int, long long int> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long int, long long int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<std::pair<long long int, long long int> >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’} changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In function ‘void mems::readBackboneSeqFile(std::istream&, std::vector<std::vector<std::pair<long long int, long long int> > >&)’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<std::pair<long long int, long long int>*, std::vector<std::pair<long long int, long long int> > >’ changed in GCC 7.1
  121 |    _M_realloc_insert(end(), std::forward<_Args>(__args)...);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from backbone_global_to_local.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from backbone_global_to_local.cpp:1:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from backbone_global_to_local.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from backbone_global_to_local.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from backbone_global_to_local.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o backbone_global_to_local backbone_global_to_local.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o xmfa2maf.o xmfa2maf.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/ext/hash_map:60,
                 from /usr/include/libMems/HomologyHMM/dptables.h:43,
                 from /usr/include/libMems/HomologyHMM/homology.h:27,
                 from /usr/include/libMems/Islands.h:25,
                 from /usr/include/libMems/ProgressiveAligner.h:21,
                 from xmfa2maf.cpp:2:
/usr/arm-linux-gnueabihf/include/c++/9/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 /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from xmfa2maf.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from xmfa2maf.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from xmfa2maf.cpp:1:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from xmfa2maf.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from xmfa2maf.cpp:1:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from xmfa2maf.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from xmfa2maf.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from xmfa2maf.cpp:1:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o xmfa2maf xmfa2maf.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
arm-linux-gnueabihf-g++ -DHAVE_CONFIG_H -I. -I/usr/include/libMems -I/usr/include/libGenome -I/usr/include/libMUSCLE    -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o coordinateTranslate.o coordinateTranslate.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from coordinateTranslate.cpp:5:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:171:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  171 |     vector<_Tp, _Alloc>::
      |     ^~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from coordinateTranslate.cpp:5:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericInterval<GappedBaseImpl>::GetColumnAndMatch(gnSeqI, std::vector<long long unsigned int>&, std::vector<bool>&, size_t&, gnSeqI&) const [with GappedBaseImpl = mems::AbstractGappedAlignment<mems::SparseAbstractMatch<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from coordinateTranslate.cpp:5:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from coordinateTranslate.cpp:5:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::HybridAbstractMatch<FIXED_SEQ_COUNT, int64Alloc, uintAlloc>::SetStart(uint, int64) [with unsigned int FIXED_SEQ_COUNT = 2; int64Alloc = std::allocator<long long int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
In file included from /usr/include/libMems/Match.h:22,
                 from /usr/include/libMems/Interval.h:21,
                 from /usr/include/libMems/IntervalList.h:22,
                 from coordinateTranslate.cpp:5:
/usr/include/libMems/HybridAbstractMatch.h:202:1: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
  202 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from coordinateTranslate.cpp:5:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetLeftEnd(uint, gnSeqI) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/include/libMems/Interval.h:18,
                 from /usr/include/libMems/IntervalList.h:22,
                 from coordinateTranslate.cpp:5:
/usr/include/libMems/SparseAbstractMatch.h:195:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
  195 | }
      | ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from coordinateTranslate.cpp:5:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::SparseAbstractMatch<gnSeqIAlloc, uintAlloc>::SetStart(uint, int64) [with gnSeqIAlloc = std::allocator<long long unsigned int>; uintAlloc = std::allocator<unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1428:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’ changed in GCC 7.1
 1428 |       { return _M_erase(begin() + (__position - cbegin())); }
      |                                                          ^
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from coordinateTranslate.cpp:5:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const mems::GenericInterval<mems::AbstractGappedAlignment<mems::SparseAbstractMatch<std::allocator<long long unsigned int>, std::allocator<unsigned int> > > >&}; _Tp = mems::GenericInterval<>; _Alloc = std::allocator<mems::GenericInterval<> >]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’} changed in GCC 7.1
  426 |       vector<_Tp, _Alloc>::
      |       ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67,
                 from /usr/include/libGenome/gnGenomeSpec.h:21,
                 from /usr/include/libGenome/gnSequence.h:27,
                 from /usr/include/libMems/SortedMerList.h:19,
                 from /usr/include/libMems/IntervalList.h:20,
                 from coordinateTranslate.cpp:5:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In member function ‘void mems::GenericIntervalList<MatchType>::ReadStandardAlignment(std::istream&) [with MatchType = mems::GenericInterval<>]’:
/usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<mems::GenericInterval<>*, std::vector<mems::GenericInterval<>, std::allocator<mems::GenericInterval<> > > >’ changed in GCC 7.1
 1195 |    _M_realloc_insert(end(), __x);
      |    ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -O2 -funroll-loops -fomit-frame-pointer -ftree-vectorize   -DCOMMAND_LINE  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -Wl,-z,relro -Wl,-z,now -o coordinateTranslate coordinateTranslate.o -L/usr/lib/arm-linux-gnueabihf -lMems -lboost_system -lboost_filesystem -lboost_program_options -lboost_iostreams -lrt -lpthread -lGenome -lMUSCLE   
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Entering directory '/<<PKGBUILDDIR>>'
make[2]: Nothing to be done for 'all-am'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   dh_auto_test -a
   create-stamp debian/debhelper-build-stamp
 fakeroot debian/rules binary-arch
dh binary-arch
   dh_testroot -a
   dh_prep -a
   dh_auto_install -a
	make -j1 install DESTDIR=/<<BUILDDIR>>/progressivemauve-1.2.0\+4713\+dfsg/debian/progressivemauve AM_UPDATE_INFO_DIR=no
make[1]: Entering directory '/<<PKGBUILDDIR>>'
Making install in src
make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
make[3]: Entering directory '/<<PKGBUILDDIR>>/src'
 /bin/mkdir -p '/<<PKGBUILDDIR>>/debian/progressivemauve/usr/bin'
  /usr/bin/install -c mauveAligner scoreAlignment uniqueMerCount toRawSequence mfa2xmfa addUnalignedIntervals toMultiFastA getAlignmentWindows uniquifyTrees toGrimmFormat mauveToXMFA stripGapColumns progressiveMauve extractBCITrees createBackboneMFA repeatoire alignmentProjector stripSubsetLCBs projectAndStrip makeBadgerMatrix randomGeneSample getOrthologList bbFilter bbAnalyze backbone_global_to_local xmfa2maf coordinateTranslate '/<<PKGBUILDDIR>>/debian/progressivemauve/usr/bin'
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Entering directory '/<<PKGBUILDDIR>>'
make[3]: Entering directory '/<<PKGBUILDDIR>>'
make[3]: Nothing to be done for 'install-exec-am'.
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   dh_installdocs -a
   dh_installchangelogs -a
   dh_installman -a
   dh_perl -a
   dh_link -a
   dh_strip_nondeterminism -a
   dh_compress -a
   dh_fixperms -a
   dh_missing -a
   dh_strip -a
   dh_makeshlibs -a
   dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/xmfa2maf contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/repeatoire contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/stripSubsetLCBs contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/uniquifyTrees contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/backbone_global_to_local contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/getOrthologList contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/extractBCITrees contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/projectAndStrip contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/toRawSequence contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/mauveAligner contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/coordinateTranslate contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/bbAnalyze contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/makeBadgerMatrix contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/alignmentProjector contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/toMultiFastA contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/mfa2xmfa contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/uniqueMerCount contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/createBackboneMFA contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/scoreAlignment contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/bbFilter contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/stripGapColumns contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/addUnalignedIntervals contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/getAlignmentWindows contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/mauveToXMFA contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/progressiveMauve contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/toGrimmFormat contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/progressivemauve/usr/bin/randomGeneSample contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
   dh_installdeb -a
   dh_gencontrol -a
   dh_md5sums -a
   dh_builddeb -a
dpkg-deb: building package 'progressivemauve' in '../progressivemauve_1.2.0+4713+dfsg-4_armhf.deb'.
dpkg-deb: building package 'progressivemauve-dbgsym' in '../progressivemauve-dbgsym_1.2.0+4713+dfsg-4_armhf.deb'.
 dpkg-genbuildinfo --build=any
 dpkg-genchanges --build=any >../progressivemauve_1.2.0+4713+dfsg-4_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
 dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2020-07-01T13:06:30Z

Finished
--------

I: Built successfully

+------------------------------------------------------------------------------+
| Changes                                                                      |
+------------------------------------------------------------------------------+


progressivemauve_1.2.0+4713+dfsg-4_armhf.changes:
-------------------------------------------------

Format: 1.8
Date: Tue, 04 Dec 2018 10:03:31 +0100
Source: progressivemauve
Binary: progressivemauve progressivemauve-dbgsym
Built-For-Profiles: cross nocheck
Architecture: armhf
Version: 1.2.0+4713+dfsg-4
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
 progressivemauve - multiple genome alignment algorithms
Closes: 914049
Changes:
 progressivemauve (1.2.0+4713+dfsg-4) unstable; urgency=medium
 .
   [ Giovanni Mascellani ]
   * Fix FTBFS with boost1.67
     Closes: #914049
 .
   [ Andreas Tille ]
   * Standards-Version: 4.2.1
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Files:
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+------------------------------------------------------------------------------+
| Buildinfo                                                                    |
+------------------------------------------------------------------------------+

Format: 1.0
Source: progressivemauve
Binary: progressivemauve progressivemauve-dbgsym
Architecture: armhf
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Build-Origin: Debian
Build-Architecture: amd64
Build-Date: Wed, 01 Jul 2020 13:06:30 +0000
Build-Path: /<<PKGBUILDDIR>>
Installed-Build-Depends:
 autoconf (= 2.69-11.1),
 automake (= 1:1.16.2-1),
 autopoint (= 0.19.8.1-10),
 autotools-dev (= 20180224.1),
 base-files (= 11),
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 bash (= 5.0-6),
 binutils (= 2.34-8),
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 build-essential (= 12.8),
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 cpp (= 4:9.2.1-3.1),
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 libboost-filesystem1.71.0 (= 1.71.0-6+b2),
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 libboost-iostreams1.71-dev (= 1.71.0-6+b2),
 libboost-iostreams1.71.0 (= 1.71.0-6+b2),
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 libboost-program-options1.71-dev (= 1.71.0-6+b2),
 libboost-program-options1.71.0 (= 1.71.0-6+b2),
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 libcrypt-dev (= 1:4.4.16-1),
 libcrypt1 (= 1:4.4.16-1),
 libcryptsetup12 (= 2:2.3.3-1),
 libctf-nobfd0 (= 2.34-8),
 libctf0 (= 2.34-8),
 libdb5.3 (= 5.3.28+dfsg1-0.6),
 libdebconfclient0 (= 0.252),
 libdebhelper-perl (= 13.1),
 libdevmapper1.02.1 (= 2:1.02.167-1+b1),
 libdpkg-perl (= 1.20.3),
 libelf1 (= 0.176-1.1),
 libffi7 (= 3.3-4),
 libfile-stripnondeterminism-perl (= 1.8.1-1),
 libgcc-9-dev (= 9.3.0-14),
 libgcc-s1 (= 10.1.0-4),
 libgcrypt20 (= 1.8.5-5),
 libgdbm-compat4 (= 1.18.1-5),
 libgdbm6 (= 1.18.1-5),
 libgenome-dev (= 1.3.11+svn20110227.4616-2),
 libgenome0 (= 1.3.11+svn20110227.4616-2),
 libglib2.0-0 (= 2.64.3-1),
 libgmp10 (= 2:6.2.0+dfsg-6),
 libgomp1 (= 10.1.0-4),
 libgpg-error0 (= 1.38-1),
 libicu-dev (= 67.1-2),
 libicu67 (= 67.1-2),
 libisl22 (= 0.22.1-1),
 libitm1 (= 10.1.0-4),
 libjson-c4 (= 0.13.1+dfsg-9),
 liblsan0 (= 10.1.0-4),
 liblz4-1 (= 1.9.2-2),
 liblzma5 (= 5.2.4-1+b1),
 libmagic-mgc (= 1:5.38-5),
 libmagic1 (= 1:5.38-5),
 libmems-dev (= 1.6.0+4725-8+b2),
 libmems1 (= 1.6.0+4725-8+b2),
 libmount1 (= 2.35.2-6),
 libmpc3 (= 1.1.0-1),
 libmpfr6 (= 4.0.2-1),
 libmuscle-dev (= 3.7+4565-6),
 libmuscle1 (= 3.7+4565-6),
 libpam-modules (= 1.3.1-5),
 libpam-modules-bin (= 1.3.1-5),
 libpam-runtime (= 1.3.1-5),
 libpam0g (= 1.3.1-5),
 libpcre2-8-0 (= 10.34-7),
 libpcre3 (= 2:8.39-13),
 libperl5.30 (= 5.30.3-4),
 libpipeline1 (= 1.5.2-2),
 libpkgconf3 (= 1.6.3-5+b1),
 libquadmath0 (= 10.1.0-4),
 libseccomp2 (= 2.4.3-1+b1),
 libselinux1 (= 3.0-1+b3),
 libsigsegv2 (= 2.12-2),
 libsmartcols1 (= 2.35.2-6),
 libssl1.1 (= 1.1.1g-1),
 libstdc++-9-dev (= 9.3.0-14),
 libstdc++6 (= 10.1.0-4),
 libsub-override-perl (= 0.09-2),
 libsystemd0 (= 245.6-1),
 libtinfo6 (= 6.2-1),
 libtool (= 2.4.6-14),
 libtsan0 (= 10.1.0-4),
 libubsan1 (= 10.1.0-4),
 libuchardet0 (= 0.0.7-1),
 libudev1 (= 245.6-1),
 libunistring2 (= 0.9.10-4),
 libuuid1 (= 2.35.2-6),
 libxml2 (= 2.9.10+dfsg-5+b1),
 libzstd1 (= 1.4.5+dfsg-3),
 linux-libc-dev (= 5.7.6-1),
 login (= 1:4.8.1-1),
 lsb-base (= 11.1.0),
 m4 (= 1.4.18-4),
 make (= 4.3-4),
 man-db (= 2.9.3-1),
 mawk (= 1.3.4.20200120-2),
 ncurses-base (= 6.2-1),
 ncurses-bin (= 6.2-1),
 patch (= 2.7.6-6),
 perl (= 5.30.3-4),
 perl-base (= 5.30.3-4),
 perl-modules-5.30 (= 5.30.3-4),
 pkgconf (= 1.6.3-5+b1),
 po-debconf (= 1.0.21),
 sed (= 4.7-1),
 sensible-utils (= 0.0.12+nmu1),
 sysvinit-utils (= 2.96-3),
 tar (= 1.30+dfsg-7),
 util-linux (= 2.35.2-6),
 xz-utils (= 5.2.4-1+b1),
 zlib1g (= 1:1.2.11.dfsg-2)
Environment:
 DEB_BUILD_OPTIONS="nocheck parallel=1"
 DEB_BUILD_PROFILES="cross nocheck"
 LANG="en_US.UTF-8"
 LC_ALL="C.UTF-8"
 SOURCE_DATE_EPOCH="1543914211"


+------------------------------------------------------------------------------+
| Package contents                                                             |
+------------------------------------------------------------------------------+


progressivemauve-dbgsym_1.2.0+4713+dfsg-4_armhf.deb
---------------------------------------------------

 new Debian package, version 2.0.
 size 18072656 bytes: control archive=1784 bytes.
    1494 bytes,    12 lines      control              
    2862 bytes,    27 lines      md5sums              
 Package: progressivemauve-dbgsym
 Source: progressivemauve
 Version: 1.2.0+4713+dfsg-4
 Auto-Built-Package: debug-symbols
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 18767
 Depends: progressivemauve (= 1.2.0+4713+dfsg-4)
 Section: debug
 Priority: optional
 Description: debug symbols for progressivemauve
 Build-Ids: 06ead07d602127c6ccd1915b581955764e5f7b2c 0c4db1da6a23ff0ac745d8cae742f50477a2aa60 0d23e54c702acf8c06c7b3d857b48d0b088b7401 1469c62db81f32a86f836afa51abc8e7f1957045 2a21c5977921507c0d99a67eba05eeec7a33e52b 3bc3afb7d8a8be925f8c8d6734ea1b554beeec84 402c66e6831d08138bd1b36d3f5027668aba0a81 432615c3ea06118b11efc15d0ad601251af566b7 5ba779b0190b9faee5f8bacde4739d6411784150 681a48780d90a7f5bd95268ef5cc937c76fd5504 693a8e092b1e414a1ddd0bc6fa8d5b4558c51ffd 6a57fb55dec010e076cf50ef4f815e3bfb4b186e 6e863bc49cbda5ba240703fdb6cabcc2a40ee9a1 7a1fda9dd498d8a3480fe2f9a46786444e36725a 8868df641ee15babda8fb54ffc33ccad873c251f 9354c865e52ac70aa851b99fd3d6c8b077cd5173 a0f645be385837cbc417ea364e1a45df7788eaec b21aa5b690d31b9a1647436a562332f9503d2a43 b378a215b31676fb9288e847d9ed6220520e238a c92646431d85ed8c3ec05a3234aee2f10abe0074 cf3d20783d8c985c36d30f5e1208848df9bc2be9 cf9c68548d0dc65e62344fb65ad40911b91d930d d6e4cf08326d529d27c5f28a2fb82c8dbdcf05d7 e392cc4e65c2a30b66cdd3768e416ec8a340b247 e44d56a9b105c1aa23ec5fefe0cdaa4a44c50b79 ec56ffa62bdc2005db3fa3779f766a4978b56801 f82fa0c403f7b5be4f778e54d2b154ae74dbac5a

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drwxr-xr-x root/root         0 2018-12-04 09:03 ./usr/share/
drwxr-xr-x root/root         0 2018-12-04 09:03 ./usr/share/doc/
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/doc/progressivemauve-dbgsym -> progressivemauve


progressivemauve_1.2.0+4713+dfsg-4_armhf.deb
--------------------------------------------

 new Debian package, version 2.0.
 size 653952 bytes: control archive=2480 bytes.
    1877 bytes,    36 lines      control              
    2744 bytes,    42 lines      md5sums              
 Package: progressivemauve
 Version: 1.2.0+4713+dfsg-4
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 3029
 Depends: libboost-filesystem1.71.0, libboost-iostreams1.71.0, libboost-program-options1.71.0, libc6 (>= 2.29), libgcc-s1 (>= 3.5), libgenome0, libmems1, libstdc++6 (>= 9)
 Enhances: mauve-aligner
 Section: science
 Priority: optional
 Homepage: http://darlinglab.org/mauve/user-guide/mauvealigner.html
 Description: multiple genome alignment algorithms
  The mauveAligner and progressiveMauve alignment algorithms have been
  implemented as command-line programs included with the downloadable Mauve
  software.  When run from the command-line, these programs provide options
  not yet available in the graphical interface.
  .
  Mauve is a system for efficiently constructing multiple genome alignments
  in the presence of large-scale evolutionary events such as rearrangement
  and inversion. Multiple genome alignment provides a basis for research
  into comparative genomics and the study of evolutionary dynamics.  Aligning
  whole genomes is a fundamentally different problem than aligning short
  sequences.
  .
  Mauve has been developed with the idea that a multiple genome aligner
  should require only modest computational resources. It employs algorithmic
  techniques that scale well in the amount of sequence being aligned. For
  example, a pair of Y. pestis genomes can be aligned in under a minute,
  while a group of 9 divergent Enterobacterial genomes can be aligned in
  a few hours.
  .
  Mauve computes and interactively visualizes genome sequence comparisons.
  Using FastA or GenBank sequence data, Mauve constructs multiple genome
  alignments that identify large-scale rearrangement, gene gain, gene loss,
  indels, and nucleotide substutition.
  .
  Mauve is developed at the University of Wisconsin.

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drwxr-xr-x root/root         0 2018-12-04 09:03 ./usr/
drwxr-xr-x root/root         0 2018-12-04 09:03 ./usr/bin/
-rwxr-xr-x root/root     95756 2018-12-04 09:03 ./usr/bin/addUnalignedIntervals
-rwxr-xr-x root/root    149004 2018-12-04 09:03 ./usr/bin/alignmentProjector
-rwxr-xr-x root/root     95756 2018-12-04 09:03 ./usr/bin/backbone_global_to_local
-rwxr-xr-x root/root    243228 2018-12-04 09:03 ./usr/bin/bbAnalyze
-rwxr-xr-x root/root     38360 2018-12-04 09:03 ./usr/bin/bbFilter
-rwxr-xr-x root/root     91660 2018-12-04 09:03 ./usr/bin/coordinateTranslate
-rwxr-xr-x root/root     91660 2018-12-04 09:03 ./usr/bin/createBackboneMFA
-rwxr-xr-x root/root     58840 2018-12-04 09:03 ./usr/bin/extractBCITrees
-rwxr-xr-x root/root    116236 2018-12-04 09:03 ./usr/bin/getAlignmentWindows
-rwxr-xr-x root/root    149004 2018-12-04 09:03 ./usr/bin/getOrthologList
-rwxr-xr-x root/root     95756 2018-12-04 09:03 ./usr/bin/makeBadgerMatrix
-rwxr-xr-x root/root    162820 2018-12-04 09:03 ./usr/bin/mauveAligner
-rwxr-xr-x root/root     91660 2018-12-04 09:03 ./usr/bin/mauveToXMFA
-rwxr-xr-x root/root     13836 2018-12-04 09:03 ./usr/bin/mfa2xmfa
-rwxr-xr-x root/root    228356 2018-12-04 09:03 ./usr/bin/progressiveMauve
-rwxr-xr-x root/root    124428 2018-12-04 09:03 ./usr/bin/projectAndStrip
-rwxr-xr-x root/root    136716 2018-12-04 09:03 ./usr/bin/randomGeneSample
-rwxr-xr-x root/root    392236 2018-12-04 09:03 ./usr/bin/repeatoire
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-rwxr-xr-x root/root     99852 2018-12-04 09:03 ./usr/bin/stripGapColumns
-rwxr-xr-x root/root    103948 2018-12-04 09:03 ./usr/bin/stripSubsetLCBs
-rwxr-xr-x root/root     91660 2018-12-04 09:03 ./usr/bin/toGrimmFormat
-rwxr-xr-x root/root     91660 2018-12-04 09:03 ./usr/bin/toMultiFastA
-rwxr-xr-x root/root      9740 2018-12-04 09:03 ./usr/bin/toRawSequence
-rwxr-xr-x root/root      9740 2018-12-04 09:03 ./usr/bin/uniqueMerCount
-rwxr-xr-x root/root     42456 2018-12-04 09:03 ./usr/bin/uniquifyTrees
-rwxr-xr-x root/root     99852 2018-12-04 09:03 ./usr/bin/xmfa2maf
drwxr-xr-x root/root         0 2018-12-04 09:03 ./usr/share/
drwxr-xr-x root/root         0 2018-12-04 09:03 ./usr/share/doc/
drwxr-xr-x root/root         0 2018-12-04 09:03 ./usr/share/doc/progressivemauve/
-rw-r--r-- root/root       261 2018-12-04 09:03 ./usr/share/doc/progressivemauve/README.test
-rw-r--r-- root/root       818 2018-12-04 09:03 ./usr/share/doc/progressivemauve/changelog.Debian.gz
-rw-r--r-- root/root       776 2018-12-04 09:03 ./usr/share/doc/progressivemauve/copyright
-rw-r--r-- root/root      1244 2018-12-04 09:03 ./usr/share/doc/progressivemauve/run-unit-test
drwxr-xr-x root/root         0 2018-12-04 09:03 ./usr/share/doc/progressivemauve/test_data/
-rw-r--r-- root/root      2203 2018-12-04 09:03 ./usr/share/doc/progressivemauve/test_data/all_virii.fasta.gz
-rw-r--r-- root/root      2848 2018-12-04 09:03 ./usr/share/doc/progressivemauve/test_data/genome_1.gbk.gz
-rw-r--r-- root/root      2879 2018-12-04 09:03 ./usr/share/doc/progressivemauve/test_data/genome_2.gbk.gz
-rw-r--r-- root/root      2878 2018-12-04 09:03 ./usr/share/doc/progressivemauve/test_data/genome_3.gbk.gz
drwxr-xr-x root/root         0 2018-12-04 09:03 ./usr/share/man/
drwxr-xr-x root/root         0 2018-12-04 09:03 ./usr/share/man/man1/
-rw-r--r-- root/root      1122 2018-12-04 09:03 ./usr/share/man/man1/addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/alignmentProjector.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/backbone_global_to_local.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/bbAnalyze.1.gz -> addUnalignedIntervals.1.gz
-rw-r--r-- root/root       515 2018-12-04 09:03 ./usr/share/man/man1/bbFilter.1.gz
-rw-r--r-- root/root       373 2018-12-04 09:03 ./usr/share/man/man1/coordinateTranslate.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/createBackboneMFA.1.gz -> addUnalignedIntervals.1.gz
-rw-r--r-- root/root       525 2018-12-04 09:03 ./usr/share/man/man1/extractBCITrees.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/getAlignmentWindows.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/getOrthologList.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/makeBadgerMatrix.1.gz -> addUnalignedIntervals.1.gz
-rw-r--r-- root/root      1516 2018-12-04 09:03 ./usr/share/man/man1/mauveAligner.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/mauveToXMFA.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/mfa2xmfa.1.gz -> addUnalignedIntervals.1.gz
-rw-r--r-- root/root      1987 2018-12-04 09:03 ./usr/share/man/man1/progressiveMauve.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/projectAndStrip.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/randomGeneSample.1.gz -> addUnalignedIntervals.1.gz
-rw-r--r-- root/root       919 2018-12-04 09:03 ./usr/share/man/man1/repeatoire.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/scoreAlignment.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/stripGapColumns.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/stripSubsetLCBs.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/toGrimmFormat.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/toMultiFastA.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/toRawSequence.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/uniqueMerCount.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/uniquifyTrees.1.gz -> addUnalignedIntervals.1.gz
lrwxrwxrwx root/root         0 2018-12-04 09:03 ./usr/share/man/man1/xmfa2maf.1.gz -> addUnalignedIntervals.1.gz


lintian
-------


Setup apt archive
-----------------

Merged Build-Depends: lintian:amd64
Filtered Build-Depends: lintian:amd64
dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<<RESOLVERDIR>>/apt_archive/sbuild-build-depends-lintian-dummy.deb'.
Ign:1 copy:/<<RESOLVERDIR>>/apt_archive ./ InRelease
Get:2 copy:/<<RESOLVERDIR>>/apt_archive ./ Release [963 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [590 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [671 B]
Fetched 2224 B in 0s (86.3 kB/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 following additional packages will be installed:
  diffstat gpg gpgconf libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl
  libb-hooks-op-check-perl libcapture-tiny-perl libclass-method-modifiers-perl
  libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl
  libcpanel-json-xs-perl libdata-validate-domain-perl
  libdevel-callchecker-perl libdevel-size-perl libdynaloader-functions-perl
  libemail-address-xs-perl libexporter-tiny-perl libfile-basedir-perl
  libfile-find-rule-perl libfont-ttf-perl libfuture-perl libhtml-parser-perl
  libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl
  libio-async-perl libipc-system-simple-perl libjson-maybexs-perl
  liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl
  liblist-utilsby-perl libmetrics-any-perl libmodule-implementation-perl
  libmodule-runtime-perl libmoo-perl libmoox-aliases-perl
  libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl
  libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8
  librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0
  libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl
  libsub-identify-perl libsub-name-perl libsub-quote-perl
  libtest-metrics-any-perl libtext-glob-perl libtext-levenshtein-perl
  libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl
  liburi-perl libvariable-magic-perl libxml-writer-perl libyaml-0-2
  libyaml-libyaml-perl lintian patchutils readline-common t1utils
Suggested packages:
  libxml-parser-perl libdata-dump-perl libscalar-number-perl
  libbareword-filehandles-perl libindirect-perl libmultidimensional-perl
  libdevel-lexalias-perl libdevel-stacktrace-perl libwww-perl
  binutils-multiarch libtext-template-perl readline-doc
Recommended packages:
  gnupg libhttp-message-perl libasync-mergepoint-perl libsereal-perl
  libtest-fatal-perl libtest-refcount-perl libpackage-stash-xs-perl
  libref-util-perl libtype-tiny-xs-perl libperlio-gzip-perl
The following NEW packages will be installed:
  diffstat gpg gpgconf libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl
  libb-hooks-op-check-perl libcapture-tiny-perl libclass-method-modifiers-perl
  libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl
  libcpanel-json-xs-perl libdata-validate-domain-perl
  libdevel-callchecker-perl libdevel-size-perl libdynaloader-functions-perl
  libemail-address-xs-perl libexporter-tiny-perl libfile-basedir-perl
  libfile-find-rule-perl libfont-ttf-perl libfuture-perl libhtml-parser-perl
  libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl
  libio-async-perl libipc-system-simple-perl libjson-maybexs-perl
  liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl
  liblist-utilsby-perl libmetrics-any-perl libmodule-implementation-perl
  libmodule-runtime-perl libmoo-perl libmoox-aliases-perl
  libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl
  libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8
  librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0
  libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl
  libsub-identify-perl libsub-name-perl libsub-quote-perl
  libtest-metrics-any-perl libtext-glob-perl libtext-levenshtein-perl
  libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl
  liburi-perl libvariable-magic-perl libxml-writer-perl libyaml-0-2
  libyaml-libyaml-perl lintian patchutils readline-common
  sbuild-build-depends-lintian-dummy:armhf t1utils
0 upgraded, 73 newly installed, 0 to remove and 0 not upgraded.
Need to get 6807 kB of archives.
After this operation, 19.2 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [848 B]
Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 readline-common all 8.0-4 [72.5 kB]
Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libreadline8 amd64 8.0-4 [160 kB]
Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 diffstat amd64 1.63-1 [35.6 kB]
Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libassuan0 amd64 2.5.3-7.1 [50.5 kB]
Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 gpgconf amd64 2.2.20-1 [532 kB]
Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 libsqlite3-0 amd64 3.32.3-1 [753 kB]
Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 gpg amd64 2.2.20-1 [894 kB]
Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.36+b3 [71.0 kB]
Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-1+b2 [11.3 kB]
Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libdynaloader-functions-perl all 0.003-1 [12.6 kB]
Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.008-1+b1 [15.9 kB]
Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libparams-classify-perl amd64 0.015-1+b2 [25.6 kB]
Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-runtime-perl all 0.016-1 [19.4 kB]
Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB]
Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-implementation-perl all 0.09-1 [12.9 kB]
Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-1 [7588 B]
Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libvariable-magic-perl amd64 0.62-1+b2 [46.0 kB]
Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-endofscope-perl all 0.24-1 [18.6 kB]
Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libcapture-tiny-perl all 0.48-1 [26.0 kB]
Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-method-modifiers-perl all 2.13-1 [19.2 kB]
Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-xsaccessor-perl amd64 1.19-3+b5 [38.4 kB]
Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libclone-perl amd64 0.45-1 [15.1 kB]
Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-tiny-perl all 2.24-1 [16.2 kB]
Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libcpanel-json-xs-perl amd64 4.19-1 [126 kB]
Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-domain-tld-perl all 1.75-1 [33.3 kB]
Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libdata-validate-domain-perl all 0.10-1 [12.3 kB]
Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-size-perl amd64 0.83-1+b1 [26.0 kB]
Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libemail-address-xs-perl amd64 1.04-1+b2 [28.1 kB]
Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libexporter-tiny-perl all 1.002002-1 [37.8 kB]
Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-system-simple-perl all 1.30-1 [28.2 kB]
Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-basedir-perl all 0.08-1 [17.7 kB]
Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libnumber-compare-perl all 0.03-1 [7642 B]
Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-glob-perl all 0.11-1 [8888 B]
Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-find-rule-perl all 0.34-1 [30.6 kB]
Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libfont-ttf-perl all 1.06-1 [317 kB]
Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libfuture-perl all 0.45-1 [84.4 kB]
Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-tagset-perl all 3.20-4 [13.0 kB]
Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 1.76-2 [90.2 kB]
Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-parser-perl amd64 3.72-5 [105 kB]
Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB]
Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libstruct-dumb-perl all 0.12-1 [12.9 kB]
Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libmetrics-any-perl all 0.05-2 [36.8 kB]
Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libtest-metrics-any-perl all 0.01-2 [7060 B]
Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-perl all 0.77-3 [274 kB]
Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 liblinux-epoll-perl amd64 0.017-1 [16.8 kB]
Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-loop-epoll-perl all 0.21-1 [12.1 kB]
Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libjson-maybexs-perl all 1.004002-1 [13.1 kB]
Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-compare-perl all 0.53-1 [68.9 kB]
Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-perl amd64 0.416-1+b5 [63.6 kB]
Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-utilsby-perl all 0.11-1 [15.4 kB]
Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 librole-tiny-perl all 2.001004-1 [20.8 kB]
Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB]
Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB]
Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libmoo-perl all 2.004000-1 [59.4 kB]
Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libmoox-aliases-perl all 0.001006-1 [10.2 kB]
Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libpackage-stash-perl all 0.38-1 [21.7 kB]
Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-identify-perl amd64 0.14-1+b2 [12.0 kB]
Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.26-1 [13.5 kB]
Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libnamespace-clean-perl all 0.27-1 [17.3 kB]
Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libpath-tiny-perl all 0.114-1 [53.6 kB]
Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-decoder-perl amd64 4.014+ds-1 [106 kB]
Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-encoder-perl amd64 4.014+ds-1 [108 kB]
Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshtein-perl all 0.13-1 [11.1 kB]
Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libtimedate-perl all 2.3300-1 [39.2 kB]
Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libtype-tiny-perl all 1.010002-1 [338 kB]
Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libunicode-utf8-perl amd64 0.62-1+b1 [20.2 kB]
Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-writer-perl all 0.625-1 [29.7 kB]
Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.2-1 [49.6 kB]
Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.82+repack-1 [35.6 kB]
Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.3.4-3 [89.9 kB]
Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-4 [62.1 kB]
Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.82.0 [1293 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 6807 kB in 0s (30.6 MB/s)
Selecting previously unselected package readline-common.
(Reading database ... 35841 files and directories currently installed.)
Preparing to unpack .../00-readline-common_8.0-4_all.deb ...
Unpacking readline-common (8.0-4) ...
Selecting previously unselected package libreadline8:amd64.
Preparing to unpack .../01-libreadline8_8.0-4_amd64.deb ...
Unpacking libreadline8:amd64 (8.0-4) ...
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Preparing to unpack .../02-diffstat_1.63-1_amd64.deb ...
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Preparing to unpack .../03-libassuan0_2.5.3-7.1_amd64.deb ...
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Preparing to unpack .../04-gpgconf_2.2.20-1_amd64.deb ...
Unpacking gpgconf (2.2.20-1) ...
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Preparing to unpack .../05-libsqlite3-0_3.32.3-1_amd64.deb ...
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Preparing to unpack .../07-libapt-pkg-perl_0.1.36+b3_amd64.deb ...
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Preparing to unpack .../08-libb-hooks-op-check-perl_0.22-1+b2_amd64.deb ...
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Preparing to unpack .../09-libdynaloader-functions-perl_0.003-1_all.deb ...
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Preparing to unpack .../12-libmodule-runtime-perl_0.016-1_all.deb ...
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Selecting previously unselected package libnet-domain-tld-perl.
Preparing to unpack .../24-libnet-domain-tld-perl_1.75-1_all.deb ...
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| Post Build                                                                   |
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| Summary                                                                      |
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Build Architecture: amd64
Build Profiles: cross nocheck
Build Type: any
Build-Space: 207628
Build-Time: 348
Distribution: unstable
Foreign Architectures: armhf
Host Architecture: armhf
Install-Time: 25
Job: progressivemauve_1.2.0+4713+dfsg-4
Lintian: pass
Machine Architecture: amd64
Package: progressivemauve
Package-Time: 382
Source-Version: 1.2.0+4713+dfsg-4
Space: 207628
Status: successful
Version: 1.2.0+4713+dfsg-4
--------------------------------------------------------------------------------
Finished at 2020-07-01T13:06:30Z
Build needed 00:06:22, 207628k disk space