sbuild (Debian sbuild) 0.85.0 (04 January 2023) on debian-ci-siliconvalley
+==============================================================================+
| bamtools 2.5.2+dfsg-4 (armhf) Thu, 17 Aug 2023 04:41:53 +0000 |
+==============================================================================+
Package: bamtools
Version: 2.5.2+dfsg-4
Source Version: 2.5.2+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/sid-amd64-sbuild-42639183-fc39-49c6-b7fb-977f427a50ca' with '<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/bamtools-gU2H6g/resolver-JH6iEi' with '<<RESOLVERDIR>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://localhost:3142/debian sid InRelease [210 kB]
Get:2 http://localhost:3142/debian sid/main Sources.diff/Index [63.6 kB]
Get:3 http://localhost:3142/debian sid/main amd64 Packages.diff/Index [63.6 kB]
Get:4 http://localhost:3142/debian sid/main Sources T-2023-08-17-0214.56-F-2023-08-17-0214.56.pdiff [11.3 kB]
Get:5 http://localhost:3142/debian sid/main amd64 Packages T-2023-08-17-0214.56-F-2023-08-17-0214.56.pdiff [34.0 kB]
Get:4 http://localhost:3142/debian sid/main Sources T-2023-08-17-0214.56-F-2023-08-17-0214.56.pdiff [11.3 kB]
Get:5 http://localhost:3142/debian sid/main amd64 Packages T-2023-08-17-0214.56-F-2023-08-17-0214.56.pdiff [34.0 kB]
Get:6 http://localhost:3142/debian sid/main armhf Packages [9149 kB]
Fetched 9532 kB in 2s (4958 kB/s)
Reading package lists...
Reading package lists...
Building dependency tree...
Reading state information...
Calculating upgrade...
The following packages will be upgraded:
libpam-modules libpam-modules-bin libpam-runtime libpam0g
4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
Need to get 518 kB of archives.
After this operation, 97.3 kB disk space will be freed.
Get:1 http://localhost:3142/debian sid/main amd64 libpam0g amd64 1.5.2-7 [66.7 kB]
Get:2 http://localhost:3142/debian sid/main amd64 libpam-modules-bin amd64 1.5.2-7 [50.7 kB]
Get:3 http://localhost:3142/debian sid/main amd64 libpam-modules amd64 1.5.2-7 [265 kB]
Get:4 http://localhost:3142/debian sid/main amd64 libpam-runtime all 1.5.2-7 [136 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Preparing to unpack .../libpam0g_1.5.2-7_amd64.deb ...
Unpacking libpam0g:amd64 (1.5.2-7) over (1.5.2-6) ...
Setting up libpam0g:amd64 (1.5.2-7) ...
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Preparing to unpack .../libpam-modules-bin_1.5.2-7_amd64.deb ...
Unpacking libpam-modules-bin (1.5.2-7) over (1.5.2-6) ...
Setting up libpam-modules-bin (1.5.2-7) ...
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Preparing to unpack .../libpam-modules_1.5.2-7_amd64.deb ...
Unpacking libpam-modules:amd64 (1.5.2-7) over (1.5.2-6) ...
Setting up libpam-modules:amd64 (1.5.2-7) ...
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Preparing to unpack .../libpam-runtime_1.5.2-7_all.deb ...
Unpacking libpam-runtime (1.5.2-7) over (1.5.2-6) ...
Setting up libpam-runtime (1.5.2-7) ...
Processing triggers for libc-bin (2.37-7) ...
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'bamtools' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/bamtools.git
Please use:
git clone https://salsa.debian.org/med-team/bamtools.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 168 kB of source archives.
Get:1 http://localhost:3142/debian sid/main bamtools 2.5.2+dfsg-4 (dsc) [2474 B]
Get:2 http://localhost:3142/debian sid/main bamtools 2.5.2+dfsg-4 (tar) [156 kB]
Get:3 http://localhost:3142/debian sid/main bamtools 2.5.2+dfsg-4 (diff) [10.0 kB]
Fetched 168 kB in 0s (3194 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/bamtools-gU2H6g/bamtools-2.5.2+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/bamtools-gU2H6g' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, pkg-config, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf
Filtered Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, pkg-config, 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 [609 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [790 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [833 B]
Fetched 2232 B in 0s (0 B/s)
Reading package lists...
Reading package lists...
Install main build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
Execute external solver...
The following additional packages will be installed:
autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf
bsdextrautils cmake cmake-data cpp-13-arm-linux-gnueabihf
cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf d-shlibs
debhelper dh-autoreconf dh-strip-nondeterminism doxygen dpkg-cross dwz file
g++-13-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-11-base:armhf
gcc-13-arm-linux-gnueabihf gcc-13-arm-linux-gnueabihf-base gcc-13-base:armhf
gcc-13-cross-base gcc-arm-linux-gnueabihf gettext gettext-base groff-base
help2man intltool-debian libarchive-zip-perl libarchive13 libasan6:armhf
libasan8-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbrotli1
libbsd0 libc6:armhf libc6-armhf-cross libc6-dev:armhf libc6-dev-armhf-cross
libclang-cpp14 libclang1-14 libcom-err2:armhf libconfig-auto-perl
libconfig-inifiles-perl libcrypt-dev:armhf libcrypt1:armhf libcurl4
libdebhelper-perl libdebian-dpkgcross-perl libedit2 libelf1 libexpat1
libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl
libgcc-11-dev:armhf libgcc-13-dev-armhf-cross libgcc-s1:armhf
libgcc-s1-armhf-cross libgomp1:armhf libgomp1-armhf-cross
libgssapi-krb5-2:armhf libicu72 libio-string-perl libjsoncpp-dev:armhf
libjsoncpp25 libjsoncpp25:armhf libk5crypto3:armhf libkeyutils1:armhf
libkrb5-3:armhf libkrb5support0:armhf libldap-2.5-0 libllvm14
liblocale-gettext-perl libmagic-mgc libmagic1 libncursesw6 libnghttp2-14
libnsl-dev:armhf libnsl2:armhf libpipeline1 libpkgconf3 libproc2-0 libpsl5
librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libssh2-1 libssl3:armhf
libstdc++-11-dev:armhf libstdc++-13-dev-armhf-cross libstdc++6:armhf
libstdc++6-armhf-cross libsub-override-perl libtirpc-dev:armhf
libtirpc3:armhf libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0
libuv1 libxapian30 libxml-libxml-perl libxml-namespacesupport-perl
libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl
libz3-4 linux-libc-dev:armhf linux-libc-dev-armhf-cross m4 man-db
pkg-config:armhf pkgconf:armhf pkgconf-bin po-debconf procps sensible-utils
ucf zlib1g:armhf zlib1g-dev:armhf
Suggested packages:
autoconf-archive gnu-standards autoconf-doc binutils-doc cmake-doc
cmake-format elpa-cmake-mode ninja-build gcc-13-locales cpp-13-doc cpp-doc
dh-make doxygen-latex doxygen-doc doxygen-gui graphviz binutils-multiarch
gcc-13-doc manpages-dev flex bison gdb-arm-linux-gnueabihf gcc-doc
gettext-doc libasprintf-dev libgettextpo-dev groff lrzip glibc-doc:armhf
libc-l10n:armhf locales:armhf libnss-nis:armhf libnss-nisplus:armhf
manpages-dev:armhf krb5-doc:armhf krb5-user:armhf libstdc++-11-doc:armhf
libtool-doc gfortran | fortran95-compiler gcj-jdk xapian-tools
libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx libidn2-0:armhf ca-certificates libarchive-cpio-perl
krb5-locales:armhf libldap-common libgpm2 publicsuffix libsasl2-modules
libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl
| libyaml-syck-perl libmail-sendmail-perl psmisc
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf
bsdextrautils cmake cmake-data cpp-13-arm-linux-gnueabihf
cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf d-shlibs
debhelper dh-autoreconf dh-strip-nondeterminism doxygen dpkg-cross dwz file
g++-13-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-11-base:armhf
gcc-13-arm-linux-gnueabihf gcc-13-arm-linux-gnueabihf-base gcc-13-base:armhf
gcc-13-cross-base gcc-arm-linux-gnueabihf gettext gettext-base groff-base
help2man intltool-debian libarchive-zip-perl libarchive13 libasan6:armhf
libasan8-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbrotli1
libbsd0 libc6:armhf libc6-armhf-cross libc6-dev:armhf libc6-dev-armhf-cross
libclang-cpp14 libclang1-14 libcom-err2:armhf libconfig-auto-perl
libconfig-inifiles-perl libcrypt-dev:armhf libcrypt1:armhf libcurl4
libdebhelper-perl libdebian-dpkgcross-perl libedit2 libelf1 libexpat1
libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl
libgcc-11-dev:armhf libgcc-13-dev-armhf-cross libgcc-s1:armhf
libgcc-s1-armhf-cross libgomp1:armhf libgomp1-armhf-cross
libgssapi-krb5-2:armhf libicu72 libio-string-perl libjsoncpp-dev:armhf
libjsoncpp25 libjsoncpp25:armhf libk5crypto3:armhf libkeyutils1:armhf
libkrb5-3:armhf libkrb5support0:armhf libldap-2.5-0 libllvm14
liblocale-gettext-perl libmagic-mgc libmagic1 libncursesw6 libnghttp2-14
libnsl-dev:armhf libnsl2:armhf libpipeline1 libpkgconf3 libproc2-0 libpsl5
librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libssh2-1 libssl3:armhf
libstdc++-11-dev:armhf libstdc++-13-dev-armhf-cross libstdc++6:armhf
libstdc++6-armhf-cross libsub-override-perl libtirpc-dev:armhf
libtirpc3:armhf libtool libubsan1:armhf libubsan1-armhf-cross libuchardet0
libuv1 libxapian30 libxml-libxml-perl libxml-namespacesupport-perl
libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl
libz3-4 linux-libc-dev:armhf linux-libc-dev-armhf-cross m4 man-db
pkg-config:armhf pkgconf:armhf pkgconf-bin po-debconf procps
sbuild-build-depends-main-dummy:armhf sensible-utils ucf zlib1g:armhf
zlib1g-dev:armhf
0 upgraded, 131 newly installed, 0 to remove and 0 not upgraded.
Need to get 155 MB of archives.
After this operation, 631 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://localhost:3142/debian sid/main amd64 liblocale-gettext-perl amd64 1.07-5 [15.4 kB]
Get:3 http://localhost:3142/debian sid/main amd64 libncursesw6 amd64 6.4+20230625-2 [134 kB]
Get:4 http://localhost:3142/debian sid/main amd64 libproc2-0 amd64 2:4.0.3-1 [63.2 kB]
Get:5 http://localhost:3142/debian sid/main amd64 procps amd64 2:4.0.3-1 [762 kB]
Get:6 http://localhost:3142/debian sid/main amd64 sensible-utils all 0.0.20 [19.3 kB]
Get:7 http://localhost:3142/debian sid/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB]
Get:8 http://localhost:3142/debian sid/main amd64 libmagic1 amd64 1:5.44-3 [104 kB]
Get:9 http://localhost:3142/debian sid/main amd64 file amd64 1:5.44-3 [42.5 kB]
Get:10 http://localhost:3142/debian sid/main amd64 gettext-base amd64 0.21-13 [160 kB]
Get:11 http://localhost:3142/debian sid/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB]
Get:12 http://localhost:3142/debian sid/main amd64 groff-base amd64 1.23.0-2 [1176 kB]
Get:13 http://localhost:3142/debian sid/main amd64 bsdextrautils amd64 2.39.1-4 [88.4 kB]
Get:14 http://localhost:3142/debian sid/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB]
Get:15 http://localhost:3142/debian sid/main amd64 man-db amd64 2.11.2-3 [1386 kB]
Get:16 http://localhost:3142/debian sid/main amd64 ucf all 3.0043+nmu1 [55.2 kB]
Get:17 http://localhost:3142/debian sid/main amd64 m4 amd64 1.4.19-3 [287 kB]
Get:18 http://localhost:3142/debian sid/main amd64 autoconf all 2.71-3 [332 kB]
Get:19 http://localhost:3142/debian sid/main amd64 autotools-dev all 20220109.1 [51.6 kB]
Get:20 http://localhost:3142/debian sid/main amd64 automake all 1:1.16.5-1.3 [823 kB]
Get:21 http://localhost:3142/debian sid/main amd64 autopoint all 0.21-13 [496 kB]
Get:22 http://localhost:3142/debian sid/main amd64 binutils-arm-linux-gnueabihf amd64 2.41-4 [3243 kB]
Get:23 http://localhost:3142/debian sid/main amd64 libicu72 amd64 72.1-3 [9376 kB]
Get:24 http://localhost:3142/debian sid/main amd64 libxml2 amd64 2.9.14+dfsg-1.3 [686 kB]
Get:25 http://localhost:3142/debian sid/main amd64 libarchive13 amd64 3.6.2-1 [343 kB]
Get:26 http://localhost:3142/debian sid/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB]
Get:27 http://localhost:3142/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-3 [19.3 kB]
Get:28 http://localhost:3142/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-3 [56.6 kB]
Get:29 http://localhost:3142/debian sid/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB]
Get:30 http://localhost:3142/debian sid/main amd64 libnghttp2-14 amd64 1.55.1-1 [72.8 kB]
Get:31 http://localhost:3142/debian sid/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB]
Get:32 http://localhost:3142/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB]
Get:33 http://localhost:3142/debian sid/main amd64 libssh2-1 amd64 1.11.0-2 [214 kB]
Get:34 http://localhost:3142/debian sid/main amd64 libcurl4 amd64 8.2.1-1 [388 kB]
Get:35 http://localhost:3142/debian sid/main amd64 libexpat1 amd64 2.5.0-2 [99.0 kB]
Get:36 http://localhost:3142/debian sid/main amd64 libjsoncpp25 amd64 1.9.5-6 [79.8 kB]
Get:37 http://localhost:3142/debian sid/main amd64 librhash0 amd64 1.4.3-3 [134 kB]
Get:38 http://localhost:3142/debian sid/main amd64 libuv1 amd64 1.44.2-1 [140 kB]
Get:39 http://localhost:3142/debian sid/main amd64 cmake-data all 3.27.2-1 [2102 kB]
Get:40 http://localhost:3142/debian sid/main amd64 cmake amd64 3.27.2-1 [10.3 MB]
Get:41 http://localhost:3142/debian sid/main amd64 gcc-13-arm-linux-gnueabihf-base amd64 13.2.0-2cross1 [39.6 kB]
Get:42 http://localhost:3142/debian sid/main amd64 cpp-13-arm-linux-gnueabihf amd64 13.2.0-2cross1 [9272 kB]
Get:43 http://localhost:3142/debian sid/main amd64 cpp-arm-linux-gnueabihf amd64 4:13.2.0-1 [4124 B]
Get:44 http://localhost:3142/debian sid/main amd64 cross-config all 2.6.20 [16.3 kB]
Get:45 http://localhost:3142/debian sid/main amd64 gcc-13-cross-base all 13.2.0-2cross1 [35.2 kB]
Get:46 http://localhost:3142/debian sid/main amd64 libc6-armhf-cross all 2.37-3cross1 [868 kB]
Get:47 http://localhost:3142/debian sid/main amd64 libgcc-s1-armhf-cross all 13.2.0-2cross1 [36.4 kB]
Get:48 http://localhost:3142/debian sid/main amd64 libgomp1-armhf-cross all 13.2.0-2cross1 [103 kB]
Get:49 http://localhost:3142/debian sid/main amd64 libatomic1-armhf-cross all 13.2.0-2cross1 [6752 B]
Get:50 http://localhost:3142/debian sid/main amd64 libasan8-armhf-cross all 13.2.0-2cross1 [2410 kB]
Get:51 http://localhost:3142/debian sid/main amd64 libstdc++6-armhf-cross all 13.2.0-2cross1 [545 kB]
Get:52 http://localhost:3142/debian sid/main amd64 libubsan1-armhf-cross all 13.2.0-2cross1 [967 kB]
Get:53 http://localhost:3142/debian sid/main amd64 libgcc-13-dev-armhf-cross all 13.2.0-2cross1 [783 kB]
Get:54 http://localhost:3142/debian sid/main amd64 gcc-13-arm-linux-gnueabihf amd64 13.2.0-2cross1 [18.2 MB]
Get:55 http://localhost:3142/debian sid/main amd64 gcc-arm-linux-gnueabihf amd64 4:13.2.0-1 [1476 B]
Get:56 http://localhost:3142/debian sid/main amd64 linux-libc-dev-armhf-cross all 6.3.7-1cross1 [1878 kB]
Get:57 http://localhost:3142/debian sid/main amd64 libc6-dev-armhf-cross all 2.37-3cross1 [1264 kB]
Get:58 http://localhost:3142/debian sid/main amd64 libstdc++-13-dev-armhf-cross all 13.2.0-2cross1 [2207 kB]
Get:59 http://localhost:3142/debian sid/main amd64 g++-13-arm-linux-gnueabihf amd64 13.2.0-2cross1 [10.2 MB]
Get:60 http://localhost:3142/debian sid/main amd64 g++-arm-linux-gnueabihf amd64 4:13.2.0-1 [1180 B]
Get:61 http://localhost:3142/debian sid/main amd64 libconfig-inifiles-perl all 3.000003-2 [45.9 kB]
Get:62 http://localhost:3142/debian sid/main amd64 libio-string-perl all 1.08-4 [12.1 kB]
Get:63 http://localhost:3142/debian sid/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB]
Get:64 http://localhost:3142/debian sid/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB]
Get:65 http://localhost:3142/debian sid/main amd64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB]
Get:66 http://localhost:3142/debian sid/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-1+b1 [322 kB]
Get:67 http://localhost:3142/debian sid/main amd64 libxml-simple-perl all 2.25-2 [69.8 kB]
Get:68 http://localhost:3142/debian sid/main amd64 libyaml-perl all 1.30-2 [63.4 kB]
Get:69 http://localhost:3142/debian sid/main amd64 libconfig-auto-perl all 0.44-2 [19.2 kB]
Get:70 http://localhost:3142/debian sid/main amd64 libfile-which-perl all 1.27-2 [15.1 kB]
Get:71 http://localhost:3142/debian sid/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB]
Get:72 http://localhost:3142/debian sid/main amd64 libdebian-dpkgcross-perl all 2.6.20 [15.3 kB]
Get:73 http://localhost:3142/debian sid/main amd64 dpkg-cross all 2.6.20 [25.8 kB]
Get:74 http://localhost:3142/debian sid/main amd64 crossbuild-essential-armhf all 12.10 [3484 B]
Get:75 http://localhost:3142/debian sid/main amd64 d-shlibs all 0.104 [18.6 kB]
Get:76 http://localhost:3142/debian sid/main amd64 libdebhelper-perl all 13.11.5 [81.8 kB]
Get:77 http://localhost:3142/debian sid/main amd64 libtool all 2.4.7-7 [517 kB]
Get:78 http://localhost:3142/debian sid/main amd64 dh-autoreconf all 20 [17.1 kB]
Get:79 http://localhost:3142/debian sid/main amd64 libarchive-zip-perl all 1.68-1 [104 kB]
Get:80 http://localhost:3142/debian sid/main amd64 libsub-override-perl all 0.09-4 [9304 B]
Get:81 http://localhost:3142/debian sid/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB]
Get:82 http://localhost:3142/debian sid/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B]
Get:83 http://localhost:3142/debian sid/main amd64 libelf1 amd64 0.189-4 [174 kB]
Get:84 http://localhost:3142/debian sid/main amd64 dwz amd64 0.15-1 [109 kB]
Get:85 http://localhost:3142/debian sid/main amd64 gettext amd64 0.21-13 [1300 kB]
Get:86 http://localhost:3142/debian sid/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get:87 http://localhost:3142/debian sid/main amd64 po-debconf all 1.0.21+nmu1 [248 kB]
Get:88 http://localhost:3142/debian sid/main amd64 debhelper all 13.11.5 [952 kB]
Get:89 http://localhost:3142/debian sid/main amd64 libbsd0 amd64 0.11.7-4 [115 kB]
Get:90 http://localhost:3142/debian sid/main amd64 libedit2 amd64 3.1-20221030-2 [93.0 kB]
Get:91 http://localhost:3142/debian sid/main amd64 libz3-4 amd64 4.8.12-3.1 [7216 kB]
Get:92 http://localhost:3142/debian sid/main amd64 libllvm14 amd64 1:14.0.6-13 [21.9 MB]
Get:93 http://localhost:3142/debian sid/main amd64 libclang-cpp14 amd64 1:14.0.6-13 [11.1 MB]
Get:94 http://localhost:3142/debian sid/main amd64 libclang1-14 amd64 1:14.0.6-13 [6163 kB]
Get:95 http://localhost:3142/debian sid/main amd64 libxapian30 amd64 1.4.22-1 [1100 kB]
Get:96 http://localhost:3142/debian sid/main amd64 doxygen amd64 1.9.4-4 [4611 kB]
Get:97 http://localhost:3142/debian sid/main armhf gcc-11-base armhf 11.4.0-2 [39.2 kB]
Get:98 http://localhost:3142/debian sid/main armhf gcc-13-base armhf 13.2.0-2 [39.3 kB]
Get:99 http://localhost:3142/debian sid/main amd64 help2man amd64 1.49.3 [198 kB]
Get:100 http://localhost:3142/debian sid/main armhf libgcc-s1 armhf 13.2.0-2 [36.5 kB]
Get:101 http://localhost:3142/debian sid/main armhf libc6 armhf 2.37-7 [2130 kB]
Get:102 http://localhost:3142/debian sid/main armhf libasan6 armhf 11.4.0-2 [1970 kB]
Get:103 http://localhost:3142/debian sid/main armhf libatomic1 armhf 13.2.0-2 [7012 B]
Get:104 http://localhost:3142/debian sid/main armhf linux-libc-dev armhf 6.4.4-3 [1758 kB]
Get:105 http://localhost:3142/debian sid/main armhf libcrypt1 armhf 1:4.4.36-2 [95.7 kB]
Get:106 http://localhost:3142/debian sid/main armhf libcrypt-dev armhf 1:4.4.36-2 [125 kB]
Get:107 http://localhost:3142/debian sid/main armhf libcom-err2 armhf 1.47.0-2 [18.9 kB]
Get:108 http://localhost:3142/debian sid/main armhf libkrb5support0 armhf 1.20.1-3 [29.4 kB]
Get:109 http://localhost:3142/debian sid/main armhf libk5crypto3 armhf 1.20.1-3 [74.5 kB]
Get:110 http://localhost:3142/debian sid/main armhf libkeyutils1 armhf 1.6.3-2 [7832 B]
Get:111 http://localhost:3142/debian sid/main armhf libssl3 armhf 3.0.10-1 [1664 kB]
Get:112 http://localhost:3142/debian sid/main armhf libkrb5-3 armhf 1.20.1-3 [287 kB]
Get:113 http://localhost:3142/debian sid/main armhf libgssapi-krb5-2 armhf 1.20.1-3 [111 kB]
Get:114 http://localhost:3142/debian sid/main armhf libtirpc3 armhf 1.3.3+ds-1 [72.9 kB]
Get:115 http://localhost:3142/debian sid/main armhf libnsl2 armhf 1.3.0-2 [33.9 kB]
Get:116 http://localhost:3142/debian sid/main armhf libtirpc-dev armhf 1.3.3+ds-1 [182 kB]
Get:117 http://localhost:3142/debian sid/main armhf libnsl-dev armhf 1.3.0-2 [62.1 kB]
Get:118 http://localhost:3142/debian sid/main armhf libc6-dev armhf 2.37-7 [1267 kB]
Get:119 http://localhost:3142/debian sid/main armhf libgomp1 armhf 13.2.0-2 [105 kB]
Get:120 http://localhost:3142/debian sid/main armhf libstdc++6 armhf 13.2.0-2 [593 kB]
Get:121 http://localhost:3142/debian sid/main armhf libubsan1 armhf 13.2.0-2 [968 kB]
Get:122 http://localhost:3142/debian sid/main armhf libgcc-11-dev armhf 11.4.0-2 [708 kB]
Get:123 http://localhost:3142/debian sid/main armhf libjsoncpp25 armhf 1.9.5-6 [66.9 kB]
Get:124 http://localhost:3142/debian sid/main armhf libjsoncpp-dev armhf 1.9.5-6 [24.5 kB]
Get:125 http://localhost:3142/debian sid/main amd64 libpkgconf3 amd64 1.8.1-1 [36.1 kB]
Get:126 http://localhost:3142/debian sid/main armhf libstdc++-11-dev armhf 11.4.0-2 [1990 kB]
Get:127 http://localhost:3142/debian sid/main amd64 pkgconf-bin amd64 1.8.1-1 [29.5 kB]
Get:128 http://localhost:3142/debian sid/main armhf pkgconf armhf 1.8.1-1 [25.9 kB]
Get:129 http://localhost:3142/debian sid/main armhf pkg-config armhf 1.8.1-1 [13.7 kB]
Get:130 http://localhost:3142/debian sid/main armhf zlib1g armhf 1:1.2.13.dfsg-3 [73.8 kB]
Get:131 http://localhost:3142/debian sid/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-3 [902 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 155 MB in 1s (181 MB/s)
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Unpacking man-db (2.11.2-3) ...
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Moving old data out of the way
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Unpacking libicu72:amd64 (72.1-3) ...
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Unpacking libarchive13:amd64 (3.6.2-1) ...
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Selecting previously unselected package libsasl2-modules-db:amd64.
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Selecting previously unselected package libldap-2.5-0:amd64.
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update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50...
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update-perl-sax-parsers: Updating overall Perl SAX parser modules info file...
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Processing triggers for libc-bin (2.37-7) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 6.1.0-9-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.27-1 (2023-05-08) amd64 (x86_64)
Toolchain package versions: binutils_2.41-4 dpkg-dev_1.21.22 g++-11_11.4.0-2 g++-13_13.2.0-2 gcc-11_11.4.0-2 gcc-13_13.2.0-2 libc6-dev_2.37-7 libstdc++-11-dev_11.4.0-2 libstdc++-13-dev_13.2.0-2 libstdc++-13-dev-armhf-cross_13.2.0-2cross1 libstdc++6_13.2.0-2 libstdc++6-armhf-cross_13.2.0-2cross1 linux-libc-dev_6.4.4-3
Package versions: adduser_3.137 apt_2.7.3 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-13 autotools-dev_20220109.1 base-files_13 base-passwd_3.6.1 bash_5.2.15-2+b4 binutils_2.41-4 binutils-arm-linux-gnueabihf_2.41-4 binutils-common_2.41-4 binutils-x86-64-linux-gnu_2.41-4 bsdextrautils_2.39.1-4 bsdutils_1:2.39.1-4 build-essential_12.10 bzip2_1.0.8-5+b1 cmake_3.27.2-1 cmake-data_3.27.2-1 coreutils_9.1-1 cpp_4:13.2.0-1 cpp-11_11.4.0-2 cpp-13_13.2.0-2 cpp-13-arm-linux-gnueabihf_13.2.0-2cross1 cpp-arm-linux-gnueabihf_4:13.2.0-1 cross-config_2.6.20 crossbuild-essential-armhf_12.10 d-shlibs_0.104 dash_0.5.12-6 debconf_1.5.82 debhelper_13.11.5 debian-archive-keyring_2023.4 debianutils_5.8-1 dh-autoreconf_20 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.8-4 doxygen_1.9.4-4 dpkg_1.21.22 dpkg-cross_2.6.20 dpkg-dev_1.21.22 dwz_0.15-1 e2fsprogs_1.47.0-2 fakeroot_1.32.1-1 file_1:5.44-3 findutils_4.9.0-5 g++_4:13.2.0-1 g++-11_11.4.0-2 g++-13_13.2.0-2 g++-13-arm-linux-gnueabihf_13.2.0-2cross1 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+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 3.0 (quilt)
Source: bamtools
Binary: bamtools, libbamtools-dev, libbamtools2.5.2, libbamtools-doc
Architecture: any all
Version: 2.5.2+dfsg-4
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Michael R. Crusoe <crusoe@debian.org>, Andreas Tille <tille@debian.org>, Kevin Murray <spam@kdmurray.id.au>,
Homepage: https://github.com/pezmaster31/bamtools/wiki
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/bamtools
Vcs-Git: https://salsa.debian.org/med-team/bamtools.git
Testsuite: autopkgtest
Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, pkg-config
Package-List:
bamtools deb science optional arch=any
libbamtools-dev deb libdevel optional arch=any
libbamtools-doc deb doc optional arch=all
libbamtools2.5.2 deb libs optional arch=any
Checksums-Sha1:
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Files:
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Dgit: fee001dee532092f05d7db31157b1fc20e33eec4 debian archive/debian/2.5.2+dfsg-4 https://git.dgit.debian.org/bamtools
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gpgv: Signature made Mon Dec 19 22:01:15 2022 UTC
gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
gpgv: issuer "emollier@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./bamtools_2.5.2+dfsg-4.dsc: no acceptable signature found
dpkg-source: info: extracting bamtools in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking bamtools_2.5.2+dfsg.orig.tar.xz
dpkg-source: info: unpacking bamtools_2.5.2+dfsg-4.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying 0001-ignore-thirdparty-and-fix-jsoncpp.patch
dpkg-source: info: applying shared_and_static.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=crossqa
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=unstable-amd64-sbuild
SCHROOT_CHROOT_NAME=sid-amd64-sbuild
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SCHROOT_UID=1000
SCHROOT_USER=crossqa
SHELL=/bin/sh
USER=crossqa
dpkg-buildpackage
-----------------
Command: dpkg-buildpackage --sanitize-env -aarmhf -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1
dpkg-buildpackage: info: source package bamtools
dpkg-buildpackage: info: source version 2.5.2+dfsg-4
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Étienne Mollier <emollier@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
debian/rules clean
dh clean
dh_clean
debian/rules binary-arch
dh binary-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
cd obj-arm-linux-gnueabihf && DEB_PYTHON_INSTALL_LAYOUT=deb cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_SYSTEM_NAME=Linux -DCMAKE_SYSTEM_PROCESSOR=armv7l -DCMAKE_C_COMPILER=arm-linux-gnueabihf-gcc -DCMAKE_CXX_COMPILER=arm-linux-gnueabihf-g\+\+ -DPKG_CONFIG_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-pkg-config -DPKGCONFIG_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-pkg-config -DQMAKE_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-qmake -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf ..
CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required):
Compatibility with CMake < 3.5 will be removed from a future version of
CMake.
Update the VERSION argument <min> value or use a ...<max> suffix to tell
CMake that the project does not need compatibility with older versions.
-- The CXX compiler identification is GNU 13.2.0
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/arm-linux-gnueabihf-g++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Found PkgConfig: /usr/bin/arm-linux-gnueabihf-pkg-config (found version "1.8.1")
-- Checking for one of the modules 'jsoncpp>=1'
Found system JsonCpp, not using bundled version
-- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.13")
-- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY
-- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY - Success
-- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY
-- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success
-- Performing Test COMPILER_HAS_DEPRECATED_ATTR
-- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success
-- Configuring done (0.6s)
-- Generating done (0.0s)
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_C_COMPILER
CMAKE_EXPORT_NO_PACKAGE_REGISTRY
CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY
FETCHCONTENT_FULLY_DISCONNECTED
PKGCONFIG_EXECUTABLE
QMAKE_EXECUTABLE
-- Build files have been written to: /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf
dh_auto_build -a
cd obj-arm-linux-gnueabihf && make -j1 "INSTALL=install --strip-program=true" VERBOSE=1
make[1]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<PKGBUILDDIR>> -B/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/CMakeFiles /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make[2]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/BamTools.dir/build.make src/CMakeFiles/BamTools.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/BamTools.dir/DependInfo.cmake "--color="
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/BamTools.dir/build.make src/CMakeFiles/BamTools.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 1%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o -MF CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o -c /<<PKGBUILDDIR>>/src/api/BamAlignment.cpp
[ 2%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -MF CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -c /<<PKGBUILDDIR>>/src/api/BamMultiReader.cpp
In file included from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiMerger_p.h:32,
from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiReader_p.h:29,
from /<<PKGBUILDDIR>>/src/api/BamMultiReader.cpp:16:
/<<PKGBUILDDIR>>/src/api/algorithms/Sort.h:64:18: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
64 | typedef std::binary_function<BamAlignment, BamAlignment, bool> AlignmentSortBase;
| ^~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_tree.h:65,
from /usr/arm-linux-gnueabihf/include/c++/13/map:62,
from /<<PKGBUILDDIR>>/src/api/BamMultiReader.h:13,
from /<<PKGBUILDDIR>>/src/api/BamMultiReader.cpp:15:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function<MergeItem, MergeItem, bool>
| ^~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
[ 3%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o -MF CMakeFiles/BamTools.dir/api/BamReader.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamReader.cpp.o -c /<<PKGBUILDDIR>>/src/api/BamReader.cpp
[ 4%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o -MF CMakeFiles/BamTools.dir/api/BamWriter.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamWriter.cpp.o -c /<<PKGBUILDDIR>>/src/api/BamWriter.cpp
[ 5%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -MF CMakeFiles/BamTools.dir/api/SamHeader.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamHeader.cpp
[ 6%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -MF CMakeFiles/BamTools.dir/api/SamProgram.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamProgram.cpp
[ 7%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o -MF CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamProgramChain.cpp
[ 8%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o -MF CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamReadGroup.cpp
[ 9%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o -MF CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamReadGroupDictionary.cpp
[ 10%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -MF CMakeFiles/BamTools.dir/api/SamSequence.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamSequence.cpp
[ 11%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o -MF CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamSequenceDictionary.cpp
[ 12%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/bam/BamHeader_p.cpp
[ 13%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiReader_p.cpp
In file included from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiMerger_p.h:32,
from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiReader_p.h:29,
from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiReader_p.cpp:10:
/<<PKGBUILDDIR>>/src/api/algorithms/Sort.h:64:18: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
64 | typedef std::binary_function<BamAlignment, BamAlignment, bool> AlignmentSortBase;
| ^~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/string:49,
from /usr/arm-linux-gnueabihf/include/c++/13/stdexcept:39,
from /<<PKGBUILDDIR>>/src/shared/bamtools_global.h:72,
from /<<PKGBUILDDIR>>/src/api/api_global.h:14,
from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiReader_p.h:13:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function<MergeItem, MergeItem, bool>
| ^~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
[ 14%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/bam/BamRandomAccessController_p.cpp
[ 15%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/bam/BamReader_p.cpp
[ 16%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/bam/BamWriter_p.cpp
[ 17%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/index/BamIndexFactory_p.cpp
[ 18%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:61,
from /usr/arm-linux-gnueabihf/include/c++/13/algorithm:61,
from /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/13/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*, 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++/13/bits/stl_heap.h:224:5: 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
224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Distance = int; _Tp = long long int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1812 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1918:5: 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
1918 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1918:5: 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++/13/bits/stl_algo.h:1932:32: 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
1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1918 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1812:5: 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
1812 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1812:5: 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 function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’,
inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:4861:18,
inlined from ‘void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:880:9:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1947:32: 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
1947 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1948 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1949 | __comp);
| ~~~~~~~
In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’,
inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1950:31,
inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:4861:18,
inlined from ‘void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:880:9:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1859:32: 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
1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1864:30: 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
1864 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/vector:72,
from /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.h:28,
from /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:10:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BaiAlignmentChunk&}; _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector<BamTools::Internal::BaiAlignmentChunk>::iterator’ changed in GCC 7.1
445 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/vector:66:
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]’,
inlined from ‘void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:634:27:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]’,
inlined from ‘void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:655:35:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]’,
inlined from ‘void BamTools::Internal::BamStandardIndex::SaveAlignmentChunkToBin(BamTools::Internal::BaiBinMap&, const uint32_t&, const uint64_t&, const uint64_t&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:813:28:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]’,
inlined from ‘void BamTools::Internal::BamStandardIndex::SaveAlignmentChunkToBin(BamTools::Internal::BaiBinMap&, const uint32_t&, const uint64_t&, const uint64_t&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:806:28:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ changed in GCC 7.1
529 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’,
inlined from ‘void BamTools::Internal::BamStandardIndex::SaveLinearOffsetEntry(BamTools::Internal::BaiLinearOffsetVector&, const int&, const int&, const uint64_t&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:837:23:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1034:25: 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
1034 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ changed in GCC 7.1
445 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
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>]’,
inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long int; _Alloc = std::allocator<long long int>]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1296:21,
inlined from ‘void BamTools::Internal::BamStandardIndex::CalculateCandidateOffsets(const BamTools::Internal::BaiReferenceSummary&, const uint64_t&, std::set<short unsigned int>&, std::vector<long long int>&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:179:38:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’,
inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:4861:18,
inlined from ‘void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:489:9:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1947 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1948 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1949 | __comp);
| ~~~~~~~
In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’,
inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1950:31,
inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:4861:18,
inlined from ‘void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:489:9:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1864 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 19%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/13/vector:72,
from /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.h:27,
from /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:10:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BtiBlock&}; _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector<BamTools::Internal::BtiBlock>::iterator’ changed in GCC 7.1
445 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/vector:66:
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]’,
inlined from ‘void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:589:25:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator<BamTools::Internal::BtiReferenceSummary>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector<BamTools::Internal::BtiReferenceSummary>::iterator’ changed in GCC 7.1
445 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator<BamTools::Internal::BtiReferenceSummary>]’,
inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator<BamTools::Internal::BtiReferenceSummary>]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1296:21,
inlined from ‘void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:384:37:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BtiReferenceSummary*, std::vector<BamTools::Internal::BtiReferenceSummary> >’ changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]’,
inlined from ‘virtual bool BamTools::Internal::BamToolsIndex::Create()’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:206:46:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]’,
inlined from ‘virtual bool BamTools::Internal::BamToolsIndex::Create()’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:248:42:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]’,
inlined from ‘virtual bool BamTools::Internal::BamToolsIndex::Create()’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:266:38:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
[ 20%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BamDeviceFactory_p.cpp
[ 21%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BamFile_p.cpp
[ 22%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BamFtp_p.cpp
[ 23%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BamHttp_p.cpp
[ 24%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BamPipe_p.cpp
[ 25%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BgzfStream_p.cpp
[ 26%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/ByteArray_p.cpp
[ 27%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/HostAddress_p.cpp
[ 28%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/HostInfo_p.cpp
[ 29%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/HttpHeader_p.cpp
[ 30%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/ILocalIODevice_p.cpp
[ 31%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/RollingBuffer_p.cpp
[ 32%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/TcpSocketEngine_p.cpp
[ 33%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/TcpSocket_p.cpp
[ 34%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/sam/SamFormatParser_p.cpp
[ 35%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/sam/SamFormatPrinter_p.cpp
[ 36%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/sam/SamHeaderValidator_p.cpp
[ 37%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/utils/BamException_p.cpp
[ 38%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/TcpSocketEngine_unix_p.cpp
[ 39%] Linking CXX shared library libbamtools.so
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1
/usr/bin/arm-linux-gnueabihf-g++ -fPIC -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libbamtools.so.2.5.2 -o libbamtools.so.2.5.2 CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o CMakeFiles/BamTools.dir/api/BamReader.cpp.o CMakeFiles/BamTools.dir/api/BamWriter.cpp.o CMakeFiles/BamTools.dir/api/SamHeader.cpp.o CMakeFiles/BamTools.dir/api/SamProgram.cpp.o CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o CMakeFiles/BamTools.dir/api/SamSequence.cpp.o CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -lz
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_symlink_library libbamtools.so.2.5.2 libbamtools.so.2.5.2 libbamtools.so
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 39%] Built target BamTools
make -f src/CMakeFiles/BamTools_static.dir/build.make src/CMakeFiles/BamTools_static.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/BamTools_static.dir/DependInfo.cmake "--color="
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/BamTools_static.dir/build.make src/CMakeFiles/BamTools_static.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 40%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o -c /<<PKGBUILDDIR>>/src/api/BamAlignment.cpp
[ 41%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -c /<<PKGBUILDDIR>>/src/api/BamMultiReader.cpp
In file included from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiMerger_p.h:32,
from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiReader_p.h:29,
from /<<PKGBUILDDIR>>/src/api/BamMultiReader.cpp:16:
/<<PKGBUILDDIR>>/src/api/algorithms/Sort.h:64:18: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
64 | typedef std::binary_function<BamAlignment, BamAlignment, bool> AlignmentSortBase;
| ^~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_tree.h:65,
from /usr/arm-linux-gnueabihf/include/c++/13/map:62,
from /<<PKGBUILDDIR>>/src/api/BamMultiReader.h:13,
from /<<PKGBUILDDIR>>/src/api/BamMultiReader.cpp:15:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function<MergeItem, MergeItem, bool>
| ^~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
[ 42%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o -c /<<PKGBUILDDIR>>/src/api/BamReader.cpp
[ 43%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o -c /<<PKGBUILDDIR>>/src/api/BamWriter.cpp
[ 44%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamHeader.cpp
[ 45%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamProgram.cpp
[ 46%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamProgramChain.cpp
[ 47%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamReadGroup.cpp
[ 48%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamReadGroupDictionary.cpp
[ 50%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamSequence.cpp
[ 51%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o -c /<<PKGBUILDDIR>>/src/api/SamSequenceDictionary.cpp
[ 52%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/bam/BamHeader_p.cpp
[ 53%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiReader_p.cpp
In file included from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiMerger_p.h:32,
from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiReader_p.h:29,
from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiReader_p.cpp:10:
/<<PKGBUILDDIR>>/src/api/algorithms/Sort.h:64:18: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
64 | typedef std::binary_function<BamAlignment, BamAlignment, bool> AlignmentSortBase;
| ^~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/string:49,
from /usr/arm-linux-gnueabihf/include/c++/13/stdexcept:39,
from /<<PKGBUILDDIR>>/src/shared/bamtools_global.h:72,
from /<<PKGBUILDDIR>>/src/api/api_global.h:14,
from /<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiReader_p.h:13:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
/<<PKGBUILDDIR>>/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function<MergeItem, MergeItem, bool>
| ^~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
[ 54%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/bam/BamRandomAccessController_p.cpp
[ 55%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/bam/BamReader_p.cpp
[ 56%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/bam/BamWriter_p.cpp
[ 57%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/index/BamIndexFactory_p.cpp
[ 58%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:61,
from /usr/arm-linux-gnueabihf/include/c++/13/algorithm:61,
from /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:18:
/usr/arm-linux-gnueabihf/include/c++/13/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*, 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++/13/bits/stl_heap.h:224:5: 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
224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Distance = int; _Tp = long long int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1812 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1918:5: 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
1918 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1918:5: 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++/13/bits/stl_algo.h:1932:32: 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
1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1918 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1812:5: 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
1812 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1812:5: 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 function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’,
inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:4861:18,
inlined from ‘void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:880:9:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1947:32: 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
1947 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1948 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1949 | __comp);
| ~~~~~~~
In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’,
inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1950:31,
inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<long long unsigned int*, vector<long long unsigned int> >]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:4861:18,
inlined from ‘void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:880:9:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1859:32: 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
1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1864:30: 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
1864 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/vector:72,
from /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.h:28,
from /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:10:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BaiAlignmentChunk&}; _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector<BamTools::Internal::BaiAlignmentChunk>::iterator’ changed in GCC 7.1
445 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/vector:66:
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]’,
inlined from ‘void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:634:27:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]’,
inlined from ‘void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:655:35:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]’,
inlined from ‘void BamTools::Internal::BamStandardIndex::SaveAlignmentChunkToBin(BamTools::Internal::BaiBinMap&, const uint32_t&, const uint64_t&, const uint64_t&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:813:28:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]’,
inlined from ‘void BamTools::Internal::BamStandardIndex::SaveAlignmentChunkToBin(BamTools::Internal::BaiBinMap&, const uint32_t&, const uint64_t&, const uint64_t&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:806:28:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:529:5: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ changed in GCC 7.1
529 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’,
inlined from ‘void BamTools::Internal::BamStandardIndex::SaveLinearOffsetEntry(BamTools::Internal::BaiLinearOffsetVector&, const int&, const int&, const uint64_t&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:837:23:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1034:25: 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
1034 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ changed in GCC 7.1
445 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
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>]’,
inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = long long int; _Alloc = std::allocator<long long int>]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1296:21,
inlined from ‘void BamTools::Internal::BamStandardIndex::CalculateCandidateOffsets(const BamTools::Internal::BaiReferenceSummary&, const uint64_t&, std::set<short unsigned int>&, std::vector<long long int>&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:179:38:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’,
inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:4861:18,
inlined from ‘void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:489:9:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1947 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1948 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1949 | __comp);
| ~~~~~~~
In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’,
inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1950:31,
inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator<long long int*, vector<long long int> >]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:4861:18,
inlined from ‘void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamStandardIndex_p.cpp:489:9:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1864 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 59%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp
In file included from /usr/arm-linux-gnueabihf/include/c++/13/vector:72,
from /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.h:27,
from /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:10:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BtiBlock&}; _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector<BamTools::Internal::BtiBlock>::iterator’ changed in GCC 7.1
445 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/vector:66:
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]’,
inlined from ‘void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:589:25:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator<BamTools::Internal::BtiReferenceSummary>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector<BamTools::Internal::BtiReferenceSummary>::iterator’ changed in GCC 7.1
445 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator<BamTools::Internal::BtiReferenceSummary>]’,
inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator<BamTools::Internal::BtiReferenceSummary>]’ at /usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1296:21,
inlined from ‘void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:384:37:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BtiReferenceSummary*, std::vector<BamTools::Internal::BtiReferenceSummary> >’ changed in GCC 7.1
123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]’,
inlined from ‘virtual bool BamTools::Internal::BamToolsIndex::Create()’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:206:46:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]’,
inlined from ‘virtual bool BamTools::Internal::BamToolsIndex::Create()’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:248:42:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]’,
inlined from ‘virtual bool BamTools::Internal::BamToolsIndex::Create()’ at /<<PKGBUILDDIR>>/src/api/internal/index/BamToolsIndex_p.cpp:266:38:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
[ 60%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BamDeviceFactory_p.cpp
[ 61%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BamFile_p.cpp
[ 62%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BamFtp_p.cpp
[ 63%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BamHttp_p.cpp
[ 64%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BamPipe_p.cpp
[ 65%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/BgzfStream_p.cpp
[ 66%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/ByteArray_p.cpp
[ 67%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/HostAddress_p.cpp
[ 68%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/HostInfo_p.cpp
[ 69%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/HttpHeader_p.cpp
[ 70%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/ILocalIODevice_p.cpp
[ 71%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/RollingBuffer_p.cpp
[ 72%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/TcpSocketEngine_p.cpp
[ 73%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/TcpSocket_p.cpp
[ 74%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/sam/SamFormatParser_p.cpp
[ 75%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/sam/SamFormatPrinter_p.cpp
[ 76%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/sam/SamHeaderValidator_p.cpp
[ 77%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/utils/BamException_p.cpp
[ 78%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -c /<<PKGBUILDDIR>>/src/api/internal/io/TcpSocketEngine_unix_p.cpp
[ 79%] Linking CXX static library libbamtools.a
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -P CMakeFiles/BamTools_static.dir/cmake_clean_target.cmake
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools_static.dir/link.txt --verbose=1
/usr/bin/arm-linux-gnueabihf-ar qc libbamtools.a CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o
/usr/bin/arm-linux-gnueabihf-ranlib libbamtools.a
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 79%] Built target BamTools_static
make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/BamTools-utils.dir/DependInfo.cmake "--color="
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 80%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o -c /<<PKGBUILDDIR>>/src/utils/bamtools_fasta.cpp
/<<PKGBUILDDIR>>/src/utils/bamtools_fasta.cpp: In member function ‘bool BamTools::Fasta::FastaPrivate::CreateIndex(const std::string&)’:
/<<PKGBUILDDIR>>/src/utils/bamtools_fasta.cpp:161:15: warning: comparison is always true due to limited range of data type [-Wtype-limits]
161 | while ((c >= 0) && (c != '\n')) {
| ~~^~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/vector:72,
from /<<PKGBUILDDIR>>/src/utils/bamtools_fasta.cpp:21:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const BamTools::Fasta::FastaPrivate::FastaIndexData&}; _Tp = BamTools::Fasta::FastaPrivate::FastaIndexData; _Alloc = std::allocator<BamTools::Fasta::FastaPrivate::FastaIndexData>]’:
/usr/arm-linux-gnueabihf/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector<BamTools::Fasta::FastaPrivate::FastaIndexData>::iterator’ changed in GCC 7.1
445 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/vector:66:
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Fasta::FastaPrivate::FastaIndexData; _Alloc = std::allocator<BamTools::Fasta::FastaPrivate::FastaIndexData>]’,
inlined from ‘bool BamTools::Fasta::FastaPrivate::CreateIndex(const std::string&)’ at /<<PKGBUILDDIR>>/src/utils/bamtools_fasta.cpp:208:24:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Fasta::FastaPrivate::FastaIndexData*, std::vector<BamTools::Fasta::FastaPrivate::FastaIndexData> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = BamTools::Fasta::FastaPrivate::FastaIndexData; _Alloc = std::allocator<BamTools::Fasta::FastaPrivate::FastaIndexData>]’,
inlined from ‘bool BamTools::Fasta::FastaPrivate::LoadIndexData()’ at /<<PKGBUILDDIR>>/src/utils/bamtools_fasta.cpp:556:24:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<BamTools::Fasta::FastaPrivate::FastaIndexData*, std::vector<BamTools::Fasta::FastaPrivate::FastaIndexData> >’ changed in GCC 7.1
1289 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
[ 81%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o -c /<<PKGBUILDDIR>>/src/utils/bamtools_options.cpp
[ 82%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o -c /<<PKGBUILDDIR>>/src/utils/bamtools_pileup_engine.cpp
[ 83%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o -c /<<PKGBUILDDIR>>/src/utils/bamtools_utilities.cpp
[ 84%] Linking CXX static library libBamTools-utils.a
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -P CMakeFiles/BamTools-utils.dir/cmake_clean_target.cmake
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools-utils.dir/link.txt --verbose=1
/usr/bin/arm-linux-gnueabihf-ar qc libBamTools-utils.a "CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o" "CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o" "CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o" "CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o"
/usr/bin/arm-linux-gnueabihf-ranlib libBamTools-utils.a
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 84%] Built target BamTools-utils
make -f src/CMakeFiles/bamtools_cmd.dir/build.make src/CMakeFiles/bamtools_cmd.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake "--color="
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/bamtools_cmd.dir/build.make src/CMakeFiles/bamtools_cmd.dir/build
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 85%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools.cpp
[ 86%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_convert.cpp
[ 87%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_count.cpp
In file included from /<<PKGBUILDDIR>>/src/api/BamAlgorithms.h:15,
from /<<PKGBUILDDIR>>/src/toolkit/bamtools_count.cpp:12:
/<<PKGBUILDDIR>>/src/api/algorithms/Sort.h:64:18: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
64 | typedef std::binary_function<BamAlignment, BamAlignment, bool> AlignmentSortBase;
| ^~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/string:49,
from /<<PKGBUILDDIR>>/src/toolkit/bamtools_tool.h:14,
from /<<PKGBUILDDIR>>/src/toolkit/bamtools_count.h:13,
from /<<PKGBUILDDIR>>/src/toolkit/bamtools_count.cpp:10:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
[ 88%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_coverage.cpp
[ 89%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_filter.cpp
[ 90%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_header.cpp
[ 91%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_index.cpp
[ 92%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_merge.cpp
[ 93%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_random.cpp
[ 94%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_resolve.cpp
[ 95%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_revert.cpp
[ 96%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_sort.cpp
In file included from /<<PKGBUILDDIR>>/src/toolkit/bamtools_sort.cpp:15:
/<<PKGBUILDDIR>>/src/api/algorithms/Sort.h:64:18: warning: ‘template<class _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated [-Wdeprecated-declarations]
64 | typedef std::binary_function<BamAlignment, BamAlignment, bool> AlignmentSortBase;
| ^~~~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabihf/include/c++/13/string:49,
from /<<PKGBUILDDIR>>/src/toolkit/bamtools_tool.h:14,
from /<<PKGBUILDDIR>>/src/toolkit/bamtools_sort.h:13,
from /<<PKGBUILDDIR>>/src/toolkit/bamtools_sort.cpp:10:
/usr/arm-linux-gnueabihf/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
[ 97%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_split.cpp
[ 98%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<PKGBUILDDIR>>/src -I/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o -c /<<PKGBUILDDIR>>/src/toolkit/bamtools_stats.cpp
[100%] Linking CXX executable bamtools
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bamtools_cmd.dir/link.txt --verbose=1
/usr/bin/arm-linux-gnueabihf-g++ -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o -o bamtools -Wl,-rpath,/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src: libBamTools-utils.a -L/usr/lib/arm-linux-gnueabihf -ljsoncpp libbamtools.so.2.5.2
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[100%] Built target bamtools_cmd
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
/usr/bin/cmake -E cmake_progress_start /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/CMakeFiles 0
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
create-stamp debian/debhelper-build-stamp
dh_prep -a
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cd obj-arm-linux-gnueabihf && make -j1 install DESTDIR=/<<BUILDDIR>>/bamtools-2.5.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<PKGBUILDDIR>> -B/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
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make[2]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
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Install the project...
/usr/bin/cmake -P cmake_install.cmake
-- Install configuration: "None"
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.2
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.a
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/bin/bamtools
-- Set runtime path of "/<<PKGBUILDDIR>>/debian/tmp/usr/bin/bamtools" to ""
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/BamAlgorithms.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/BamAlignment.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/BamAux.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/BamConstants.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/BamIndex.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/BamMultiReader.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/BamReader.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/BamWriter.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/IBamIODevice.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/SamConstants.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/SamHeader.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/SamProgram.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/SamProgramChain.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/SamReadGroup.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/SamReadGroupDictionary.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/SamSequence.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/SamSequenceDictionary.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/api_global.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/bamtools_api_export.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/api/algorithms/Sort.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/include/bamtools/shared/bamtools_global.h
-- Installing: /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig/bamtools-1.pc
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
debian/rules override_dh_install-arch
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_install --arch
d-shlibmove --commit \
--multiarch \
--devunversioned \
--exclude-la \
--movedev debian/tmp/usr/include/* usr/include \
--movedev "debian/tmp/usr/lib/*/pkgconfig/*.pc" usr/lib/arm-linux-gnueabihf/pkgconfig \
debian/tmp/usr/lib/*/*.so
Library package automatic movement utility
--> zlib1g-dev package exists.
set -e
install -d -m 755 debian/libbamtools-dev/usr/lib/arm-linux-gnueabihf
install -d -m 755 debian/libbamtools2.5.2/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.a debian/libbamtools-dev/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so debian/libbamtools-dev/usr/lib/arm-linux-gnueabihf
mv /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.2 debian/libbamtools2.5.2/usr/lib/arm-linux-gnueabihf
PKGDEV=libbamtools-dev
PKGSHL=libbamtools2.5.2
install -d -m 755 debian/libbamtools-dev/usr/include
mv debian/tmp/usr/include/bamtools debian/libbamtools-dev/usr/include
install -d -m 755 debian/libbamtools-dev/usr/lib/arm-linux-gnueabihf/pkgconfig
mv debian/tmp/usr/lib/*/pkgconfig/*.pc debian/libbamtools-dev/usr/lib/arm-linux-gnueabihf/pkgconfig
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_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/bamtools/usr/bin/bamtools contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libbamtools2.5.2/usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.2 found in none of the libraries
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'bamtools' in '../bamtools_2.5.2+dfsg-4_armhf.deb'.
dpkg-deb: building package 'bamtools-dbgsym' in '../bamtools-dbgsym_2.5.2+dfsg-4_armhf.deb'.
dpkg-deb: building package 'libbamtools-dev' in '../libbamtools-dev_2.5.2+dfsg-4_armhf.deb'.
dpkg-deb: building package 'libbamtools2.5.2' in '../libbamtools2.5.2_2.5.2+dfsg-4_armhf.deb'.
dpkg-deb: building package 'libbamtools2.5.2-dbgsym' in '../libbamtools2.5.2-dbgsym_2.5.2+dfsg-4_armhf.deb'.
dpkg-genbuildinfo --build=any -O../bamtools_2.5.2+dfsg-4_armhf.buildinfo
dpkg-genchanges --build=any -O../bamtools_2.5.2+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 2023-08-17T04:44:17Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
bamtools_2.5.2+dfsg-4_armhf.changes:
------------------------------------
Format: 1.8
Date: Mon, 19 Dec 2022 22:45:16 +0100
Source: bamtools
Binary: bamtools bamtools-dbgsym libbamtools-dev libbamtools2.5.2 libbamtools2.5.2-dbgsym
Built-For-Profiles: cross nocheck
Architecture: armhf
Version: 2.5.2+dfsg-4
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Étienne Mollier <emollier@debian.org>
Description:
bamtools - toolkit for manipulating BAM (genome alignment) files
libbamtools-dev - C++ API for manipulating BAM (genome alignment) files
libbamtools2.5.2 - dynamic library for manipulating BAM (genome alignment) files
Closes: 988848
Changes:
bamtools (2.5.2+dfsg-4) unstable; urgency=medium
.
* Team upload.
* d/control: libbamtools-doc depends on libjs-jquery.
Thanks to Andreas Beckmann (Closes: #988848)
* Standards-Version: 4.6.2 (routine-update)
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Files:
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c358f0acf2314c4f0ef02038f4f9b252 7625 science optional bamtools_2.5.2+dfsg-4_armhf.buildinfo
9a6f74fb322ed85a306497802c15d844 173880 science optional bamtools_2.5.2+dfsg-4_armhf.deb
96842aeb56bca75ec57a0043b44bc950 205176 libdevel optional libbamtools-dev_2.5.2+dfsg-4_armhf.deb
a99c2795cd337c2434b806e7fdc04bc5 2716308 debug optional libbamtools2.5.2-dbgsym_2.5.2+dfsg-4_armhf.deb
ba72cc6f5e2c9cdbdab7b0bf8d1c7051 138428 libs optional libbamtools2.5.2_2.5.2+dfsg-4_armhf.deb
+------------------------------------------------------------------------------+
| Buildinfo |
+------------------------------------------------------------------------------+
Format: 1.0
Source: bamtools
Binary: bamtools bamtools-dbgsym libbamtools-dev libbamtools2.5.2 libbamtools2.5.2-dbgsym
Architecture: armhf
Version: 2.5.2+dfsg-4
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Build-Origin: Debian
Build-Architecture: amd64
Build-Date: Thu, 17 Aug 2023 04:44:16 +0000
Build-Path: /<<PKGBUILDDIR>>
Build-Tainted-By:
merged-usr-via-aliased-dirs
Installed-Build-Depends:
adduser (= 3.137),
apt (= 2.7.3),
autoconf (= 2.71-3),
automake (= 1:1.16.5-1.3),
autopoint (= 0.21-13),
autotools-dev (= 20220109.1),
base-files (= 13),
base-passwd (= 3.6.1),
bash (= 5.2.15-2+b4),
binutils (= 2.41-4),
binutils-common (= 2.41-4),
binutils-x86-64-linux-gnu (= 2.41-4),
bsdextrautils (= 2.39.1-4),
bsdutils (= 1:2.39.1-4),
build-essential (= 12.10),
bzip2 (= 1.0.8-5+b1),
cmake (= 3.27.2-1),
cmake-data (= 3.27.2-1),
coreutils (= 9.1-1),
cpp (= 4:13.2.0-1),
cpp-11 (= 11.4.0-2),
cpp-13 (= 13.2.0-2),
d-shlibs (= 0.104),
dash (= 0.5.12-6),
debconf (= 1.5.82),
debhelper (= 13.11.5),
debian-archive-keyring (= 2023.4),
debianutils (= 5.8-1),
dh-autoreconf (= 20),
dh-strip-nondeterminism (= 1.13.1-1),
diffutils (= 1:3.8-4),
doxygen (= 1.9.4-4),
dpkg (= 1.21.22),
dpkg-dev (= 1.21.22),
dwz (= 0.15-1),
file (= 1:5.44-3),
findutils (= 4.9.0-5),
g++ (= 4:13.2.0-1),
g++-13 (= 13.2.0-2),
gcc (= 4:13.2.0-1),
gcc-11 (= 11.4.0-2),
gcc-11-base (= 11.4.0-2),
gcc-13 (= 13.2.0-2),
gcc-13-base (= 13.2.0-2),
gettext (= 0.21-13),
gettext-base (= 0.21-13),
gpgv (= 2.2.40-1.1),
grep (= 3.11-2),
groff-base (= 1.23.0-2),
gzip (= 1.12-1),
help2man (= 1.49.3),
hostname (= 3.23+nmu1),
init-system-helpers (= 1.65.2),
intltool-debian (= 0.35.0+20060710.6),
libacl1 (= 2.3.1-3),
libapt-pkg6.0 (= 2.7.3),
libarchive-zip-perl (= 1.68-1),
libarchive13 (= 3.6.2-1),
libasan6 (= 11.4.0-2),
libasan8 (= 13.2.0-2),
libatomic1 (= 13.2.0-2),
libattr1 (= 1:2.5.1-4),
libaudit-common (= 1:3.1.1-1),
libaudit1 (= 1:3.1.1-1),
libbinutils (= 2.41-4),
libblkid1 (= 2.39.1-4),
libbrotli1 (= 1.0.9-2+b6),
libbsd0 (= 0.11.7-4),
libbz2-1.0 (= 1.0.8-5+b1),
libc-bin (= 2.37-7),
libc-dev-bin (= 2.37-7),
libc6 (= 2.37-7),
libc6-dev (= 2.37-7),
libcap-ng0 (= 0.8.3-1+b3),
libcap2 (= 1:2.66-4),
libcc1-0 (= 13.2.0-2),
libclang-cpp14 (= 1:14.0.6-13),
libclang1-14 (= 1:14.0.6-13),
libcom-err2 (= 1.47.0-2),
libcrypt-dev (= 1:4.4.36-2),
libcrypt1 (= 1:4.4.36-2),
libctf-nobfd0 (= 2.41-4),
libctf0 (= 2.41-4),
libcurl4 (= 8.2.1-1),
libdb5.3 (= 5.3.28+dfsg2-2),
libdebconfclient0 (= 0.270),
libdebhelper-perl (= 13.11.5),
libdpkg-perl (= 1.21.22),
libedit2 (= 3.1-20221030-2),
libelf1 (= 0.189-4),
libexpat1 (= 2.5.0-2),
libffi8 (= 3.4.4-1),
libfile-find-rule-perl (= 0.34-3),
libfile-stripnondeterminism-perl (= 1.13.1-1),
libgcc-11-dev (= 11.4.0-2),
libgcc-13-dev (= 13.2.0-2),
libgcc-s1 (= 13.2.0-2),
libgcrypt20 (= 1.10.2-2),
libgdbm-compat4 (= 1.23-3),
libgdbm6 (= 1.23-3),
libgmp10 (= 2:6.3.0+dfsg-2),
libgnutls30 (= 3.8.1-3),
libgomp1 (= 13.2.0-2),
libgpg-error0 (= 1.47-2),
libgprofng0 (= 2.41-4),
libgssapi-krb5-2 (= 1.20.1-3),
libhogweed6 (= 3.9.1-2),
libhwasan0 (= 13.2.0-2),
libicu72 (= 72.1-3),
libidn2-0 (= 2.3.4-1),
libisl23 (= 0.26-3),
libitm1 (= 13.2.0-2),
libjansson4 (= 2.14-2),
libjsoncpp-dev (= 1.9.5-6),
libjsoncpp25 (= 1.9.5-6),
libk5crypto3 (= 1.20.1-3),
libkeyutils1 (= 1.6.3-2),
libkrb5-3 (= 1.20.1-3),
libkrb5support0 (= 1.20.1-3),
libldap-2.5-0 (= 2.5.13+dfsg-5),
libllvm14 (= 1:14.0.6-13),
liblocale-gettext-perl (= 1.07-5),
liblsan0 (= 13.2.0-2),
liblz4-1 (= 1.9.4-1),
liblzma5 (= 5.4.1-0.2),
libmagic-mgc (= 1:5.44-3),
libmagic1 (= 1:5.44-3),
libmd0 (= 1.1.0-1),
libmount1 (= 2.39.1-4),
libmpc3 (= 1.3.1-1),
libmpfr6 (= 4.2.0-1),
libncursesw6 (= 6.4+20230625-2),
libnettle8 (= 3.9.1-2),
libnghttp2-14 (= 1.55.1-1),
libnsl-dev (= 1.3.0-2),
libnsl2 (= 1.3.0-2),
libnumber-compare-perl (= 0.03-3),
libp11-kit0 (= 0.25.0-4),
libpam-modules (= 1.5.2-7),
libpam-modules-bin (= 1.5.2-7),
libpam-runtime (= 1.5.2-7),
libpam0g (= 1.5.2-7),
libpcre2-8-0 (= 10.42-2),
libperl5.36 (= 5.36.0-7),
libpipeline1 (= 1.5.7-1),
libpkgconf3 (= 1.8.1-1),
libproc2-0 (= 2:4.0.3-1),
libpsl5 (= 0.21.2-1),
libquadmath0 (= 13.2.0-2),
librhash0 (= 1.4.3-3),
librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2),
libsasl2-2 (= 2.1.28+dfsg1-3),
libsasl2-modules-db (= 2.1.28+dfsg1-3),
libseccomp2 (= 2.5.4-1+b3),
libselinux1 (= 3.5-1),
libsemanage-common (= 3.5-1),
libsemanage2 (= 3.5-1),
libsepol2 (= 3.5-1),
libsframe1 (= 2.41-4),
libsmartcols1 (= 2.39.1-4),
libssh2-1 (= 1.11.0-2),
libssl3 (= 3.0.10-1),
libstdc++-13-dev (= 13.2.0-2),
libstdc++6 (= 13.2.0-2),
libsub-override-perl (= 0.09-4),
libsystemd0 (= 254.1-2),
libtasn1-6 (= 4.19.0-3),
libtext-glob-perl (= 0.11-3),
libtinfo6 (= 6.4+20230625-2),
libtirpc-common (= 1.3.3+ds-1),
libtirpc-dev (= 1.3.3+ds-1),
libtirpc3 (= 1.3.3+ds-1),
libtool (= 2.4.7-7),
libtsan0 (= 11.4.0-2),
libtsan2 (= 13.2.0-2),
libubsan1 (= 13.2.0-2),
libuchardet0 (= 0.0.7-1),
libudev1 (= 254.1-2),
libunistring2 (= 1.0-2),
libuuid1 (= 2.39.1-4),
libuv1 (= 1.44.2-1),
libxapian30 (= 1.4.22-1),
libxml2 (= 2.9.14+dfsg-1.3),
libxxhash0 (= 0.8.1-1),
libz3-4 (= 4.8.12-3.1),
libzstd1 (= 1.5.5+dfsg2-1),
linux-libc-dev (= 6.4.4-3),
login (= 1:4.13+dfsg1-1+b1),
m4 (= 1.4.19-3),
make (= 4.3-4.1),
man-db (= 2.11.2-3),
mawk (= 1.3.4.20230730-1),
ncurses-base (= 6.4+20230625-2),
ncurses-bin (= 6.4+20230625-2),
passwd (= 1:4.13+dfsg1-1+b1),
patch (= 2.7.6-7),
perl (= 5.36.0-7),
perl-base (= 5.36.0-7),
perl-modules-5.36 (= 5.36.0-7),
pkg-config (= 1.8.1-1),
pkgconf (= 1.8.1-1),
pkgconf-bin (= 1.8.1-1),
po-debconf (= 1.0.21+nmu1),
procps (= 2:4.0.3-1),
rpcsvc-proto (= 1.4.3-1),
sed (= 4.9-1),
sensible-utils (= 0.0.20),
sysvinit-utils (= 3.07-1),
tar (= 1.34+dfsg-1.2),
usrmerge (= 35),
util-linux (= 2.39.1-4),
xz-utils (= 5.4.1-0.2),
zlib1g (= 1:1.2.13.dfsg-3),
zlib1g-dev (= 1:1.2.13.dfsg-3)
Environment:
DEB_BUILD_OPTIONS="nocheck parallel=1"
DEB_BUILD_PROFILES="cross nocheck"
LANG="en_US.UTF-8"
LC_ALL="C.UTF-8"
LC_COLLATE="C.UTF-8"
SOURCE_DATE_EPOCH="1671486316"
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
bamtools-dbgsym_2.5.2+dfsg-4_armhf.deb
--------------------------------------
new Debian package, version 2.0.
size 3433436 bytes: control archive=536 bytes.
385 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: bamtools-dbgsym
Source: bamtools
Version: 2.5.2+dfsg-4
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 3455
Depends: bamtools (= 2.5.2+dfsg-4)
Section: debug
Priority: optional
Description: debug symbols for bamtools
Build-Ids: e93ae82fbb79fdd603e8bf66d36e8a0770021f22
drwxr-xr-x root/root 0 2022-12-19 21:45 ./
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/debug/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/debug/.build-id/e9/
-rw-r--r-- root/root 3527524 2022-12-19 21:45 ./usr/lib/debug/.build-id/e9/3ae82fbb79fdd603e8bf66d36e8a0770021f22.debug
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/doc/
lrwxrwxrwx root/root 0 2022-12-19 21:45 ./usr/share/doc/bamtools-dbgsym -> bamtools
bamtools_2.5.2+dfsg-4_armhf.deb
-------------------------------
new Debian package, version 2.0.
size 173880 bytes: control archive=1480 bytes.
1810 bytes, 37 lines control
551 bytes, 8 lines md5sums
Package: bamtools
Version: 2.5.2+dfsg-4
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 417
Depends: libbamtools2.5.2 (>= 2.5.2+dfsg), libc6 (>= 2.34), libgcc-s1 (>= 3.5), libjsoncpp25 (>= 1.9.5), libstdc++6 (>= 13.1)
Section: science
Priority: optional
Homepage: https://github.com/pezmaster31/bamtools/wiki
Description: toolkit for manipulating BAM (genome alignment) files
BamTools facilitates research analysis and data management using BAM
files. It copes with the enormous amount of data produced by current
sequencing technologies that is typically stored in compressed, binary
formats that are not easily handled by the text-based parsers commonly
used in bioinformatics research.
.
BamTools provides both a C++ API for BAM file support as well as a
command-line toolkit.
.
This is the bamtools command-line toolkit.
.
Available bamtools commands:
convert Converts between BAM and a number of other formats
count Prints number of alignments in BAM file(s)
coverage Prints coverage statistics from the input BAM file
filter Filters BAM file(s) by user-specified criteria
header Prints BAM header information
index Generates index for BAM file
merge Merge multiple BAM files into single file
random Select random alignments from existing BAM file(s), intended more
as a testing tool.
resolve Resolves paired-end reads (marking the IsProperPair flag as needed)
revert Removes duplicate marks and restores original base qualities
sort Sorts the BAM file according to some criteria
split Splits a BAM file on user-specified property, creating a new BAM
output file for each value found
stats Prints some basic statistics from input BAM file(s)
drwxr-xr-x root/root 0 2022-12-19 21:45 ./
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drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/bin/
-rwxr-xr-x root/root 407068 2022-12-19 21:45 ./usr/bin/bamtools
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/doc/
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-rw-r--r-- root/root 262 2022-12-19 21:45 ./usr/share/doc/bamtools/README.test
-rw-r--r-- root/root 1381 2022-12-19 21:45 ./usr/share/doc/bamtools/changelog.Debian.gz
-rw-r--r-- root/root 1665 2022-12-19 21:45 ./usr/share/doc/bamtools/copyright
-rw-r--r-- root/root 352 2022-12-19 21:45 ./usr/share/doc/bamtools/filter_script
-rw-r--r-- root/root 1607 2022-12-19 21:45 ./usr/share/doc/bamtools/run-unit-test
-rw-r--r-- root/root 375 2022-12-19 21:45 ./usr/share/doc/bamtools/sam_spec_example.bam
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/man/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/man/man1/
-rw-r--r-- root/root 792 2022-12-19 21:45 ./usr/share/man/man1/bamtools.1.gz
libbamtools-dev_2.5.2+dfsg-4_armhf.deb
--------------------------------------
new Debian package, version 2.0.
size 205176 bytes: control archive=1620 bytes.
968 bytes, 25 lines control
1972 bytes, 26 lines md5sums
Package: libbamtools-dev
Source: bamtools
Version: 2.5.2+dfsg-4
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 978
Depends: libbamtools2.5.2 (= 2.5.2+dfsg-4), zlib1g-dev
Suggests: libbamtools-doc (= 2.5.2+dfsg-4)
Breaks: libbamtools2.5.1
Replaces: libbamtools2.5.1
Section: libdevel
Priority: optional
Multi-Arch: same
Homepage: https://github.com/pezmaster31/bamtools/wiki
Description: C++ API for manipulating BAM (genome alignment) files
BamTools facilitates research analysis and data management using BAM
files. It copes with the enormous amount of data produced by current
sequencing technologies that is typically stored in compressed, binary
formats that are not easily handled by the text-based parsers commonly
used in bioinformatics research.
.
BamTools provides both a C++ API for BAM file support as well as a
command-line toolkit.
.
This is the developers API package.
drwxr-xr-x root/root 0 2022-12-19 21:45 ./
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-rw-r--r-- root/root 848 2021-06-20 19:43 ./usr/include/bamtools/api/BamAlgorithms.h
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-rw-r--r-- root/root 1950 2021-06-20 19:43 ./usr/include/bamtools/api/BamWriter.h
-rw-r--r-- root/root 2818 2021-06-20 19:43 ./usr/include/bamtools/api/IBamIODevice.h
-rw-r--r-- root/root 3491 2021-06-20 19:43 ./usr/include/bamtools/api/SamConstants.h
-rw-r--r-- root/root 2842 2021-06-20 19:43 ./usr/include/bamtools/api/SamHeader.h
-rw-r--r-- root/root 2261 2021-06-20 19:43 ./usr/include/bamtools/api/SamProgram.h
-rw-r--r-- root/root 2822 2021-06-20 19:43 ./usr/include/bamtools/api/SamProgramChain.h
-rw-r--r-- root/root 3189 2021-06-20 19:43 ./usr/include/bamtools/api/SamReadGroup.h
-rw-r--r-- root/root 2987 2021-06-20 19:43 ./usr/include/bamtools/api/SamReadGroupDictionary.h
-rw-r--r-- root/root 2540 2021-06-20 19:43 ./usr/include/bamtools/api/SamSequence.h
-rw-r--r-- root/root 2950 2021-06-20 19:43 ./usr/include/bamtools/api/SamSequenceDictionary.h
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/include/bamtools/api/algorithms/
-rw-r--r-- root/root 12403 2021-06-20 19:43 ./usr/include/bamtools/api/algorithms/Sort.h
-rw-r--r-- root/root 663 2021-06-20 19:43 ./usr/include/bamtools/api/api_global.h
-rw-r--r-- root/root 967 2022-12-19 21:45 ./usr/include/bamtools/api/bamtools_api_export.h
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/include/bamtools/shared/
-rw-r--r-- root/root 2136 2021-06-20 19:43 ./usr/include/bamtools/shared/bamtools_global.h
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 867732 2022-12-19 21:45 ./usr/lib/arm-linux-gnueabihf/libbamtools.a
lrwxrwxrwx root/root 0 2022-12-19 21:45 ./usr/lib/arm-linux-gnueabihf/libbamtools.so -> libbamtools.so.2.5.2
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/arm-linux-gnueabihf/pkgconfig/
-rw-r--r-- root/root 263 2022-12-19 21:45 ./usr/lib/arm-linux-gnueabihf/pkgconfig/bamtools-1.pc
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/cmake/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/cmake/bamtools/
-rw-r--r-- root/root 1574 2022-12-19 21:45 ./usr/share/cmake/bamtools/bamtools-config.cmake
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/doc/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/doc/libbamtools-dev/
-rw-r--r-- root/root 1384 2022-12-19 21:45 ./usr/share/doc/libbamtools-dev/changelog.Debian.gz
-rw-r--r-- root/root 1665 2022-12-19 21:45 ./usr/share/doc/libbamtools-dev/copyright
libbamtools2.5.2-dbgsym_2.5.2+dfsg-4_armhf.deb
----------------------------------------------
new Debian package, version 2.0.
size 2716308 bytes: control archive=556 bytes.
426 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libbamtools2.5.2-dbgsym
Source: bamtools
Version: 2.5.2+dfsg-4
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2764
Depends: libbamtools2.5.2 (= 2.5.2+dfsg-4)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libbamtools2.5.2
Build-Ids: b839025f0b537e93d3dd51296ff6e5413b998399
drwxr-xr-x root/root 0 2022-12-19 21:45 ./
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/debug/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/debug/.build-id/
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drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/share/doc/
lrwxrwxrwx root/root 0 2022-12-19 21:45 ./usr/share/doc/libbamtools2.5.2-dbgsym -> libbamtools2.5.2
libbamtools2.5.2_2.5.2+dfsg-4_armhf.deb
---------------------------------------
new Debian package, version 2.0.
size 138428 bytes: control archive=1064 bytes.
904 bytes, 22 lines control
243 bytes, 3 lines md5sums
51 bytes, 1 lines shlibs
68 bytes, 2 lines triggers
Package: libbamtools2.5.2
Source: bamtools
Version: 2.5.2+dfsg-4
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 304
Depends: libc6 (>= 2.15), libgcc-s1 (>= 3.5), libstdc++6 (>= 13.1), zlib1g (>= 1:1.1.4)
Section: libs
Priority: optional
Multi-Arch: same
Homepage: https://github.com/pezmaster31/bamtools/wiki
Description: dynamic library for manipulating BAM (genome alignment) files
BamTools facilitates research analysis and data management using BAM
files. It copes with the enormous amount of data produced by current
sequencing technologies that is typically stored in compressed, binary
formats that are not easily handled by the text-based parsers commonly
used in bioinformatics research.
.
BamTools provides both a C++ API for BAM file support as well as a
command-line toolkit.
.
This is the runtime library.
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drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/
drwxr-xr-x root/root 0 2022-12-19 21:45 ./usr/lib/
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-rw-r--r-- root/root 296356 2022-12-19 21:45 ./usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.2
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-rw-r--r-- root/root 1665 2022-12-19 21:45 ./usr/share/doc/libbamtools2.5.2/copyright
lintian
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libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl
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perl-openssl-defaults plzip readline-common t1utils unzip
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libmultidimensional-perl libbusiness-isbn-perl libregexp-ipv6-perl
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zip
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libsocket6-perl libpackage-stash-xs-perl libxstring-perl libdata-dump-perl
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The following NEW packages will be installed:
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Get:43 http://localhost:3142/debian sid/main amd64 libexception-class-perl all 1.45-1 [34.6 kB]
Get:44 http://localhost:3142/debian sid/main amd64 libiterator-perl all 0.03+ds1-2 [18.8 kB]
Get:45 http://localhost:3142/debian sid/main amd64 libiterator-util-perl all 0.02+ds1-2 [14.0 kB]
Get:46 http://localhost:3142/debian sid/main amd64 libdata-dpath-perl all 0.58-2 [43.6 kB]
Get:47 http://localhost:3142/debian sid/main amd64 libdata-messagepack-perl amd64 1.02-1+b1 [35.2 kB]
Get:48 http://localhost:3142/debian sid/main amd64 libnet-domain-tld-perl all 1.75-3 [31.9 kB]
Get:49 http://localhost:3142/debian sid/main amd64 libdata-validate-domain-perl all 0.10-1.1 [11.1 kB]
Get:50 http://localhost:3142/debian sid/main amd64 libnet-ipv6addr-perl all 1.02-1 [21.7 kB]
Get:51 http://localhost:3142/debian sid/main amd64 libnet-netmask-perl all 2.0002-2 [28.6 kB]
Get:52 http://localhost:3142/debian sid/main amd64 libnetaddr-ip-perl amd64 4.079+dfsg-2+b1 [99.5 kB]
Get:53 http://localhost:3142/debian sid/main amd64 libdata-validate-ip-perl all 0.31-1 [20.6 kB]
Get:54 http://localhost:3142/debian sid/main amd64 libdata-validate-uri-perl all 0.07-2 [11.2 kB]
Get:55 http://localhost:3142/debian sid/main amd64 libdevel-size-perl amd64 0.83-2+b1 [24.3 kB]
Get:56 http://localhost:3142/debian sid/main amd64 libemail-address-xs-perl amd64 1.05-1+b1 [29.4 kB]
Get:57 http://localhost:3142/debian sid/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB]
Get:58 http://localhost:3142/debian sid/main amd64 libipc-system-simple-perl all 1.30-2 [26.8 kB]
Get:59 http://localhost:3142/debian sid/main amd64 libfile-basedir-perl all 0.09-2 [15.1 kB]
Get:60 http://localhost:3142/debian sid/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB]
Get:61 http://localhost:3142/debian sid/main amd64 libhttp-date-perl all 6.05-2 [10.5 kB]
Get:62 http://localhost:3142/debian sid/main amd64 libfile-listing-perl all 6.15-1 [12.6 kB]
Get:63 http://localhost:3142/debian sid/main amd64 libfont-ttf-perl all 1.06-2 [318 kB]
Get:64 http://localhost:3142/debian sid/main amd64 libio-html-perl all 1.004-3 [16.2 kB]
Get:65 http://localhost:3142/debian sid/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB]
Get:66 http://localhost:3142/debian sid/main amd64 libhttp-message-perl all 6.44-2 [81.8 kB]
Get:67 http://localhost:3142/debian sid/main amd64 libhtml-form-perl all 6.11-1 [33.1 kB]
Get:68 http://localhost:3142/debian sid/main amd64 libhtml-html5-entities-perl all 0.004-3 [21.0 kB]
Get:69 http://localhost:3142/debian sid/main amd64 libhtml-tree-perl all 5.07-3 [211 kB]
Get:70 http://localhost:3142/debian sid/main amd64 libhttp-cookies-perl all 6.10-1 [19.6 kB]
Get:71 http://localhost:3142/debian sid/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB]
Get:72 http://localhost:3142/debian sid/main amd64 perl-openssl-defaults amd64 7+b1 [7924 B]
Get:73 http://localhost:3142/debian sid/main amd64 libnet-ssleay-perl amd64 1.92-2+b1 [317 kB]
Get:74 http://localhost:3142/debian sid/main amd64 libio-socket-ssl-perl all 2.083-1 [218 kB]
Get:75 http://localhost:3142/debian sid/main amd64 libnet-http-perl all 6.22-1 [25.3 kB]
Get:76 http://localhost:3142/debian sid/main amd64 liblwp-protocol-https-perl all 6.11-1 [10.5 kB]
Get:77 http://localhost:3142/debian sid/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB]
Get:78 http://localhost:3142/debian sid/main amd64 libwww-perl all 6.72-1 [187 kB]
Get:79 http://localhost:3142/debian sid/main amd64 libhtml-tokeparser-simple-perl all 3.16-4 [39.1 kB]
Get:80 http://localhost:3142/debian sid/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB]
Get:81 http://localhost:3142/debian sid/main amd64 libio-interactive-perl all 1.023-2 [11.0 kB]
Get:82 http://localhost:3142/debian sid/main amd64 libipc-run3-perl all 0.048-3 [33.2 kB]
Get:83 http://localhost:3142/debian sid/main amd64 libjson-maybexs-perl all 1.004005-1 [12.9 kB]
Get:84 http://localhost:3142/debian sid/main amd64 liblist-compare-perl all 0.55-2 [65.7 kB]
Get:85 http://localhost:3142/debian sid/main amd64 liblist-someutils-perl all 0.59-1 [37.1 kB]
Get:86 http://localhost:3142/debian sid/main amd64 liblist-utilsby-perl all 0.12-2 [15.5 kB]
Get:87 http://localhost:3142/debian sid/main amd64 liblz1 amd64 1.13-6 [37.8 kB]
Get:88 http://localhost:3142/debian sid/main amd64 liblzo2-2 amd64 2.10-2 [56.9 kB]
Get:89 http://localhost:3142/debian sid/main amd64 libmarkdown2 amd64 2.2.7-2 [37.0 kB]
Get:90 http://localhost:3142/debian sid/main amd64 libmldbm-perl all 2.05-4 [16.8 kB]
Get:91 http://localhost:3142/debian sid/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB]
Get:92 http://localhost:3142/debian sid/main amd64 libsub-quote-perl all 2.006008-1 [21.8 kB]
Get:93 http://localhost:3142/debian sid/main amd64 libmoo-perl all 2.005005-1 [58.0 kB]
Get:94 http://localhost:3142/debian sid/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB]
Get:95 http://localhost:3142/debian sid/main amd64 libmoox-aliases-perl all 0.001006-2 [7156 B]
Get:96 http://localhost:3142/debian sid/main amd64 libmouse-perl amd64 2.5.10-1+b3 [170 kB]
Get:97 http://localhost:3142/debian sid/main amd64 libpackage-stash-perl all 0.40-1 [22.0 kB]
Get:98 http://localhost:3142/debian sid/main amd64 libsub-identify-perl amd64 0.14-3 [10.9 kB]
Get:99 http://localhost:3142/debian sid/main amd64 libsub-name-perl amd64 0.27-1 [12.5 kB]
Get:100 http://localhost:3142/debian sid/main amd64 libnamespace-clean-perl all 0.27-2 [17.8 kB]
Get:101 http://localhost:3142/debian sid/main amd64 libpath-tiny-perl all 0.144-1 [56.4 kB]
Get:102 http://localhost:3142/debian sid/main amd64 libperlio-gzip-perl amd64 0.20-1+b1 [17.3 kB]
Get:103 http://localhost:3142/debian sid/main amd64 libperlio-utf8-strict-perl amd64 0.010-1 [11.4 kB]
Get:104 http://localhost:3142/debian sid/main amd64 libproc-processtable-perl amd64 0.636-1 [43.0 kB]
Get:105 http://localhost:3142/debian sid/main amd64 libregexp-wildcards-perl all 1.05-3 [14.1 kB]
Get:106 http://localhost:3142/debian sid/main amd64 libsereal-decoder-perl amd64 5.004+ds-1 [99.5 kB]
Get:107 http://localhost:3142/debian sid/main amd64 libsereal-encoder-perl amd64 5.004+ds-1 [102 kB]
Get:108 http://localhost:3142/debian sid/main amd64 libsort-versions-perl all 1.62-3 [8928 B]
Get:109 http://localhost:3142/debian sid/main amd64 libxs-parse-keyword-perl amd64 0.38-1 [60.0 kB]
Get:110 http://localhost:3142/debian sid/main amd64 libsyntax-keyword-try-perl amd64 0.29-1 [28.8 kB]
Get:111 http://localhost:3142/debian sid/main amd64 libterm-readkey-perl amd64 2.38-2+b1 [24.5 kB]
Get:112 http://localhost:3142/debian sid/main amd64 libtext-levenshteinxs-perl amd64 0.03-5+b1 [8404 B]
Get:113 http://localhost:3142/debian sid/main amd64 libtext-markdown-discount-perl amd64 0.16-1 [13.0 kB]
Get:114 http://localhost:3142/debian sid/main amd64 libtext-xslate-perl amd64 3.5.9-1+b2 [198 kB]
Get:115 http://localhost:3142/debian sid/main amd64 libtime-duration-perl all 1.21-2 [13.1 kB]
Get:116 http://localhost:3142/debian sid/main amd64 libtime-moment-perl amd64 0.44-2+b1 [73.0 kB]
Get:117 http://localhost:3142/debian sid/main amd64 libunicode-utf8-perl amd64 0.62-2 [20.2 kB]
Get:118 http://localhost:3142/debian sid/main amd64 libwww-mechanize-perl all 2.17-1 [116 kB]
Get:119 http://localhost:3142/debian sid/main amd64 libyaml-0-2 amd64 0.2.5-1 [53.6 kB]
Get:120 http://localhost:3142/debian sid/main amd64 libyaml-libyaml-perl amd64 0.86+ds-1 [34.4 kB]
Get:121 http://localhost:3142/debian sid/main amd64 plzip amd64 1.10-6 [63.1 kB]
Get:122 http://localhost:3142/debian sid/main amd64 lzop amd64 1.04-2 [84.2 kB]
Get:123 http://localhost:3142/debian sid/main amd64 patchutils amd64 0.4.2-1 [77.5 kB]
Get:124 http://localhost:3142/debian sid/main amd64 t1utils amd64 1.41-4 [62.1 kB]
Get:125 http://localhost:3142/debian sid/main amd64 unzip amd64 6.0-28 [166 kB]
Get:126 http://localhost:3142/debian sid/main amd64 lintian all 2.116.3 [1130 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Selecting previously unselected package netbase.
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Unpacking readline-common (8.2-1.3) ...
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Unpacking libreadline8:amd64 (8.2-1.3) ...
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Unpacking gpgconf (2.2.40-1.1) ...
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Unpacking gpg (2.2.40-1.1) ...
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Unpacking iso-codes (4.15.0-1) ...
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Unpacking libaliased-perl (0.34-3) ...
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Selecting previously unselected package libb-hooks-op-check-perl:amd64.
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Unpacking libb-hooks-op-check-perl:amd64 (0.22-2+b1) ...
Selecting previously unselected package libdynaloader-functions-perl.
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Unpacking libdynaloader-functions-perl (0.003-3) ...
Selecting previously unselected package libdevel-callchecker-perl:amd64.
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Selecting previously unselected package libparams-classify-perl:amd64.
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Unpacking libparams-classify-perl:amd64 (0.015-2+b1) ...
Selecting previously unselected package libmodule-runtime-perl.
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Unpacking libmodule-runtime-perl (0.016-2) ...
Selecting previously unselected package libtry-tiny-perl.
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Selecting previously unselected package libsub-exporter-progressive-perl.
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Selecting previously unselected package libvariable-magic-perl.
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Selecting previously unselected package libb-hooks-endofscope-perl.
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Selecting previously unselected package libberkeleydb-perl:amd64.
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Selecting previously unselected package libcapture-tiny-perl.
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Selecting previously unselected package libhtml-tagset-perl.
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Selecting previously unselected package libhtml-parser-perl:amd64.
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Selecting previously unselected package libcgi-pm-perl.
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Unpacking libcgi-pm-perl (4.57-1) ...
Selecting previously unselected package libclass-data-inheritable-perl.
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Unpacking libclass-data-inheritable-perl (0.08-3) ...
Selecting previously unselected package libclass-method-modifiers-perl.
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Selecting previously unselected package libclass-xsaccessor-perl.
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Selecting previously unselected package libclone-perl:amd64.
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Selecting previously unselected package libconfig-tiny-perl.
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Selecting previously unselected package libsub-install-perl.
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Selecting previously unselected package libdata-optlist-perl.
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Selecting previously unselected package libsub-exporter-perl.
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Selecting previously unselected package libcpanel-json-xs-perl:amd64.
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Unpacking libcpanel-json-xs-perl:amd64 (4.37-1) ...
Selecting previously unselected package libdevel-stacktrace-perl.
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Selecting previously unselected package libexception-class-perl.
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Selecting previously unselected package libnet-domain-tld-perl.
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Selecting previously unselected package libnet-ipv6addr-perl.
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Selecting previously unselected package libnet-netmask-perl.
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Unpacking libnet-netmask-perl (2.0002-2) ...
Selecting previously unselected package libnetaddr-ip-perl.
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Unpacking libhtml-form-perl (6.11-1) ...
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Selecting previously unselected package libnet-ssleay-perl:amd64.
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Unpacking libnet-ssleay-perl:amd64 (1.92-2+b1) ...
Selecting previously unselected package libio-socket-ssl-perl.
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Setting up plzip (1.10-6) ...
update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip (lzip) in auto mode
update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip-compressor (lzip-compressor) in auto mode
update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip-decompressor (lzip-decompressor) in auto mode
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Setting up unzip (6.0-28) ...
Setting up libsqlite3-0:amd64 (3.42.0-1) ...
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Setting up libyaml-libyaml-perl (0.86+ds-1) ...
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Setting up perl-openssl-defaults:amd64 (7+b1) ...
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Setting up libsereal-encoder-perl (5.004+ds-1) ...
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Setting up libxs-parse-keyword-perl (0.38-1) ...
Setting up libipc-system-simple-perl (1.30-2) ...
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Setting up libparams-util-perl (1.102-2+b1) ...
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Setting up libtext-xslate-perl:amd64 (3.5.9-1+b2) ...
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Setting up libregexp-wildcards-perl (1.05-3) ...
Setting up libaliased-perl (0.34-3) ...
Setting up netbase (6.4) ...
Setting up libstrictures-perl (2.000006-1) ...
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Setting up libclass-xsaccessor-perl (1.19-4+b1) ...
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Setting up libfont-ttf-perl (1.06-2) ...
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Setting up readline-common (8.2-1.3) ...
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Setting up libmarkdown2:amd64 (2.2.7-2) ...
Setting up liburi-perl (5.19-2) ...
Setting up iso-codes (4.15.0-1) ...
Setting up libnet-ipv6addr-perl (1.02-1) ...
Setting up libdata-validate-ip-perl (0.31-1) ...
Setting up libemail-address-xs-perl (1.05-1+b1) ...
Setting up libnet-ssleay-perl:amd64 (1.92-2+b1) ...
Setting up libhttp-date-perl (6.05-2) ...
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Setting up libfile-listing-perl (6.15-1) ...
Setting up libreadline8:amd64 (8.2-1.3) ...
Setting up libnet-http-perl (6.22-1) ...
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Setting up libexception-class-perl (1.45-1) ...
Setting up libdevel-callchecker-perl:amd64 (0.008-2) ...
Setting up ca-certificates (20230311) ...
Updating certificates in /etc/ssl/certs...
140 added, 0 removed; done.
Setting up libdata-validate-uri-perl (0.07-2) ...
Setting up libdata-optlist-perl (0.114-1) ...
Setting up libwww-robotrules-perl (6.02-1) ...
Setting up libhtml-parser-perl:amd64 (3.81-1) ...
Setting up gpgconf (2.2.40-1.1) ...
Setting up libio-socket-ssl-perl (2.083-1) ...
Setting up gpg (2.2.40-1.1) ...
Setting up libsub-exporter-perl (0.990-1) ...
Setting up libhttp-message-perl (6.44-2) ...
Setting up libhtml-form-perl (6.11-1) ...
Setting up libiterator-perl (0.03+ds1-2) ...
Setting up libhttp-negotiate-perl (6.01-2) ...
Setting up libiterator-util-perl (0.02+ds1-2) ...
Setting up libhttp-cookies-perl (6.10-1) ...
Setting up libhtml-tree-perl (5.07-3) ...
Setting up libparams-classify-perl:amd64 (0.015-2+b1) ...
Setting up libcgi-pm-perl (4.57-1) ...
Setting up libmodule-runtime-perl (0.016-2) ...
Setting up libconst-fast-perl (0.014-2) ...
Setting up libdata-dpath-perl (0.58-2) ...
Setting up libmodule-implementation-perl (0.09-2) ...
Setting up libpackage-stash-perl (0.40-1) ...
Setting up libimport-into-perl (1.002005-2) ...
Setting up libmoo-perl (2.005005-1) ...
Setting up liblist-someutils-perl (0.59-1) ...
Setting up libmoox-aliases-perl (0.001006-2) ...
Setting up libb-hooks-endofscope-perl (0.26-1) ...
Setting up libnamespace-clean-perl (0.27-2) ...
Setting up libwww-perl (6.72-1) ...
Setting up libhtml-tokeparser-simple-perl (3.16-4) ...
Setting up libwww-mechanize-perl (2.17-1) ...
Setting up liblwp-protocol-https-perl (6.11-1) ...
Setting up lintian (2.116.3) ...
Setting up sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ...
Processing triggers for libc-bin (2.37-7) ...
Processing triggers for man-db (2.11.2-3) ...
Not building database; man-db/auto-update is not 'true'.
Processing triggers for ca-certificates (20230311) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
Running lintian...
I: Lintian run was successful.
+------------------------------------------------------------------------------+
| Post Build |
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+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: amd64
Build Profiles: cross nocheck
Build Type: any
Build-Space: 115664
Build-Time: 118
Distribution: unstable
Foreign Architectures: armhf
Host Architecture: armhf
Install-Time: 15
Job: bamtools_2.5.2+dfsg-4
Lintian: pass
Machine Architecture: amd64
Package: bamtools
Package-Time: 144
Source-Version: 2.5.2+dfsg-4
Space: 115664
Status: successful
Version: 2.5.2+dfsg-4
--------------------------------------------------------------------------------
Finished at 2023-08-17T04:44:17Z
Build needed 00:02:24, 115664k disk space