bamtools →
2.5.2+dfsg-5 →
armhf → 2023-12-18 04:54:27
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01
+==============================================================================+
| bamtools 2.5.2+dfsg-5 (armhf) Mon, 18 Dec 2023 04:47:55 +0000 |
+==============================================================================+
Package: bamtools
Version: 2.5.2+dfsg-5
Source Version: 2.5.2+dfsg-5
Distribution: trixie-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/trixie-staging-armhf-sbuild-57f8da90-7bcf-4447-8aad-a4a4ffb72de5' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private trixie-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private trixie-staging/main Sources [14.3 MB]
Get:3 http://172.17.4.1/private trixie-staging/main armhf Packages [15.0 MB]
Fetched 29.3 MB in 10s (2954 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
W: http://172.17.4.1/private/dists/trixie-staging/InRelease: Key is stored in legacy trusted.gpg keyring (/etc/apt/trusted.gpg), see the DEPRECATION section in apt-key(8) for details.
+------------------------------------------------------------------------------+
| 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 169 kB of source archives.
Get:1 http://172.17.4.1/private trixie-staging/main bamtools 2.5.2+dfsg-5 (dsc) [2513 B]
Get:2 http://172.17.4.1/private trixie-staging/main bamtools 2.5.2+dfsg-5 (tar) [156 kB]
Get:3 http://172.17.4.1/private trixie-staging/main bamtools 2.5.2+dfsg-5 (diff) [10.4 kB]
Fetched 169 kB in 0s (3289 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/bamtools-fLhuAL/bamtools-2.5.2+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/bamtools-fLhuAL' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-lLPqGh/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-lLPqGh/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-lLPqGh/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ Packages [431 B]
Fetched 2107 B in 0s (8534 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
krb5-locales libpam-cap netbase sensible-utils sgml-base util-linux-extra
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 67 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (70.1 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12856 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, pkg-config
Filtered Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, pkg-config
dpkg-deb: building package 'sbuild-build-depends-bamtools-dummy' in '/<<BUILDDIR>>/resolver-lLPqGh/apt_archive/sbuild-build-depends-bamtools-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-bamtools-dummy sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ Sources [539 B]
Get:5 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ Packages [618 B]
Fetched 2490 B in 0s (11.6 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install bamtools build dependencies (apt-based resolver)
--------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
krb5-locales libpam-cap netbase sgml-base util-linux-extra
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils bsdutils cmake
cmake-data d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism doxygen
dwz file gettext gettext-base groff-base help2man intltool-debian
libarchive-zip-perl libarchive13 libblkid1 libbrotli1 libbsd0 libclang-cpp14
libclang1-14 libcurl4 libdebhelper-perl libedit2 libelf1 libexpat1
libfile-stripnondeterminism-perl libicu72 libjsoncpp-dev libjsoncpp25
libllvm14 liblocale-gettext-perl libmagic-mgc libmagic1 libmount1
libnghttp2-14 libpipeline1 libpkgconf3 libproc2-0 libpsl5 librhash0 librtmp1
libsmartcols1 libssh2-1 libsub-override-perl libtool libuchardet0 libuuid1
libuv1 libxapian30 libxml2 libz3-4 m4 man-db mount pkg-config pkgconf
pkgconf-bin po-debconf procps util-linux util-linux-extra zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc cmake-doc cmake-format
elpa-cmake-mode ninja-build dh-make doxygen-latex doxygen-doc doxygen-gui
graphviz gettext-doc libasprintf-dev libgettextpo-dev groff lrzip
cryptsetup-bin libtool-doc gfortran | fortran95-compiler gcj-jdk
xapian-tools m4-doc apparmor less www-browser nfs-common libmail-box-perl
dosfstools kbd util-linux-locales
Recommended packages:
curl | wget | lynx ca-certificates libarchive-cpio-perl publicsuffix
libltdl-dev uuid-runtime libmail-sendmail-perl psmisc
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils cmake cmake-data
d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism doxygen dwz file
gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl
libarchive13 libbrotli1 libbsd0 libclang-cpp14 libclang1-14 libcurl4
libdebhelper-perl libedit2 libelf1 libexpat1
libfile-stripnondeterminism-perl libicu72 libjsoncpp-dev libjsoncpp25
libllvm14 liblocale-gettext-perl libmagic-mgc libmagic1 libnghttp2-14
libpipeline1 libpkgconf3 libproc2-0 libpsl5 librhash0 librtmp1 libssh2-1
libsub-override-perl libtool libuchardet0 libuv1 libxapian30 libxml2 libz3-4
m4 man-db pkg-config pkgconf pkgconf-bin po-debconf procps
sbuild-build-depends-bamtools-dummy zlib1g-dev
The following packages will be upgraded:
bsdutils libblkid1 libmount1 libsmartcols1 libuuid1 mount util-linux
util-linux-extra
8 upgraded, 62 newly installed, 0 to remove and 59 not upgraded.
Need to get 78.7 MB of archives.
After this operation, 326 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-lLPqGh/apt_archive ./ sbuild-build-depends-bamtools-dummy 0.invalid.0 [908 B]
Get:2 http://172.17.4.1/private trixie-staging/main armhf bsdutils armhf 1:2.39.3-2 [86.6 kB]
Get:3 http://172.17.4.1/private trixie-staging/main armhf libsmartcols1 armhf 2.39.3-2 [102 kB]
Get:4 http://172.17.4.1/private trixie-staging/main armhf util-linux-extra armhf 2.39.3-2 [135 kB]
Get:5 http://172.17.4.1/private trixie-staging/main armhf util-linux armhf 2.39.3-2 [1113 kB]
Get:6 http://172.17.4.1/private trixie-staging/main armhf liblocale-gettext-perl armhf 1.07-6 [14.8 kB]
Get:7 http://172.17.4.1/private trixie-staging/main armhf mount armhf 2.39.3-2 [134 kB]
Get:8 http://172.17.4.1/private trixie-staging/main armhf libblkid1 armhf 2.39.3-2 [145 kB]
Get:9 http://172.17.4.1/private trixie-staging/main armhf libmount1 armhf 2.39.3-2 [168 kB]
Get:10 http://172.17.4.1/private trixie-staging/main armhf libuuid1 armhf 2.39.3-2 [28.2 kB]
Get:11 http://172.17.4.1/private trixie-staging/main armhf libuchardet0 armhf 0.0.8-1 [65.5 kB]
Get:12 http://172.17.4.1/private trixie-staging/main armhf groff-base armhf 1.23.0-3 [1033 kB]
Get:13 http://172.17.4.1/private trixie-staging/main armhf bsdextrautils armhf 2.39.3-2 [81.2 kB]
Get:14 http://172.17.4.1/private trixie-staging/main armhf libpipeline1 armhf 1.5.7-1 [33.4 kB]
Get:15 http://172.17.4.1/private trixie-staging/main armhf man-db armhf 2.12.0-1 [1358 kB]
Get:16 http://172.17.4.1/private trixie-staging/main armhf libproc2-0 armhf 2:4.0.4-2 [54.9 kB]
Get:17 http://172.17.4.1/private trixie-staging/main armhf procps armhf 2:4.0.4-2 [848 kB]
Get:18 http://172.17.4.1/private trixie-staging/main armhf libmagic-mgc armhf 1:5.45-2 [314 kB]
Get:19 http://172.17.4.1/private trixie-staging/main armhf libmagic1 armhf 1:5.45-2 [96.1 kB]
Get:20 http://172.17.4.1/private trixie-staging/main armhf file armhf 1:5.45-2 [41.6 kB]
Get:21 http://172.17.4.1/private trixie-staging/main armhf gettext-base armhf 0.21-14 [157 kB]
Get:22 http://172.17.4.1/private trixie-staging/main armhf m4 armhf 1.4.19-4 [256 kB]
Get:23 http://172.17.4.1/private trixie-staging/main armhf autoconf all 2.71-3 [332 kB]
Get:24 http://172.17.4.1/private trixie-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:25 http://172.17.4.1/private trixie-staging/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get:26 http://172.17.4.1/private trixie-staging/main armhf autopoint all 0.21-14 [496 kB]
Get:27 http://172.17.4.1/private trixie-staging/main armhf libicu72 armhf 72.1-4 [9009 kB]
Get:28 http://172.17.4.1/private trixie-staging/main armhf libxml2 armhf 2.9.14+dfsg-1.3 [571 kB]
Get:29 http://172.17.4.1/private trixie-staging/main armhf libarchive13 armhf 3.7.2-1 [294 kB]
Get:30 http://172.17.4.1/private trixie-staging/main armhf libbrotli1 armhf 1.1.0-2 [280 kB]
Get:31 http://172.17.4.1/private trixie-staging/main armhf libnghttp2-14 armhf 1.58.0-1 [61.7 kB]
Get:32 http://172.17.4.1/private trixie-staging/main armhf libpsl5 armhf 0.21.2-1+b1 [57.8 kB]
Get:33 http://172.17.4.1/private trixie-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:34 http://172.17.4.1/private trixie-staging/main armhf libssh2-1 armhf 1.11.0-3 [195 kB]
Get:35 http://172.17.4.1/private trixie-staging/main armhf libcurl4 armhf 8.4.0-2+rpi1 [362 kB]
Get:36 http://172.17.4.1/private trixie-staging/main armhf libexpat1 armhf 2.5.0-2 [76.8 kB]
Get:37 http://172.17.4.1/private trixie-staging/main armhf libjsoncpp25 armhf 1.9.5-6 [64.7 kB]
Get:38 http://172.17.4.1/private trixie-staging/main armhf librhash0 armhf 1.4.3-3 [142 kB]
Get:39 http://172.17.4.1/private trixie-staging/main armhf libuv1 armhf 1.46.0-2+rpi1 [128 kB]
Get:40 http://172.17.4.1/private trixie-staging/main armhf cmake-data all 3.27.9-1 [2104 kB]
Get:41 http://172.17.4.1/private trixie-staging/main armhf cmake armhf 3.27.9-1 [7633 kB]
Get:42 http://172.17.4.1/private trixie-staging/main armhf d-shlibs all 0.105 [10.7 kB]
Get:43 http://172.17.4.1/private trixie-staging/main armhf libdebhelper-perl all 13.11.8 [82.1 kB]
Get:44 http://172.17.4.1/private trixie-staging/main armhf libtool all 2.4.7-7 [517 kB]
Get:45 http://172.17.4.1/private trixie-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:46 http://172.17.4.1/private trixie-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:47 http://172.17.4.1/private trixie-staging/main armhf libsub-override-perl all 0.10-1 [10.6 kB]
Get:48 http://172.17.4.1/private trixie-staging/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB]
Get:49 http://172.17.4.1/private trixie-staging/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B]
Get:50 http://172.17.4.1/private trixie-staging/main armhf libelf1 armhf 0.188-2.1+rpi1 [171 kB]
Get:51 http://172.17.4.1/private trixie-staging/main armhf dwz armhf 0.15-1 [92.4 kB]
Get:52 http://172.17.4.1/private trixie-staging/main armhf gettext armhf 0.21-14 [1203 kB]
Get:53 http://172.17.4.1/private trixie-staging/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get:54 http://172.17.4.1/private trixie-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:55 http://172.17.4.1/private trixie-staging/main armhf debhelper all 13.11.8 [956 kB]
Get:56 http://172.17.4.1/private trixie-staging/main armhf libbsd0 armhf 0.11.7-4 [111 kB]
Get:57 http://172.17.4.1/private trixie-staging/main armhf libedit2 armhf 3.1-20230828-1 [76.0 kB]
Get:58 http://172.17.4.1/private trixie-staging/main armhf libz3-4 armhf 4.8.12-3.1 [5797 kB]
Get:59 http://172.17.4.1/private trixie-staging/main armhf libllvm14 armhf 1:14.0.6-16+rpi1 [19.5 MB]
Get:60 http://172.17.4.1/private trixie-staging/main armhf libclang-cpp14 armhf 1:14.0.6-16+rpi1 [9466 kB]
Get:61 http://172.17.4.1/private trixie-staging/main armhf libclang1-14 armhf 1:14.0.6-16+rpi1 [5212 kB]
Get:62 http://172.17.4.1/private trixie-staging/main armhf libxapian30 armhf 1.4.22-1 [968 kB]
Get:63 http://172.17.4.1/private trixie-staging/main armhf doxygen armhf 1.9.4-4 [3840 kB]
Get:64 http://172.17.4.1/private trixie-staging/main armhf help2man armhf 1.49.3 [198 kB]
Get:65 http://172.17.4.1/private trixie-staging/main armhf libjsoncpp-dev armhf 1.9.5-6 [24.5 kB]
Get:66 http://172.17.4.1/private trixie-staging/main armhf libpkgconf3 armhf 1.8.1-1 [31.3 kB]
Get:67 http://172.17.4.1/private trixie-staging/main armhf pkgconf-bin armhf 1.8.1-1 [27.8 kB]
Get:68 http://172.17.4.1/private trixie-staging/main armhf pkgconf armhf 1.8.1-1 [25.9 kB]
Get:69 http://172.17.4.1/private trixie-staging/main armhf pkg-config armhf 1.8.1-1 [13.7 kB]
Get:70 http://172.17.4.1/private trixie-staging/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-3 [901 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Processing triggers for libc-bin (2.37-12+rpi2) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-187-generic armhf (armv8l)
Toolchain package versions: binutils_2.41-6+rpi1 dpkg-dev_1.22.1+rpi1 g++-12_12.3.0-10+rpi1 g++-13_13.2.0-5+rpi1 gcc-12_12.3.0-10+rpi1 gcc-13_13.2.0-5+rpi1 libc6-dev_2.37-12+rpi2 libstdc++-12-dev_12.3.0-10+rpi1 libstdc++-13-dev_13.2.0-5+rpi1 libstdc++6_13.2.0-5+rpi1 linux-libc-dev_6.5.6-1+rpi1
Package versions: adduser_3.137 apt_2.7.6 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-14 autotools-dev_20220109.1 base-files_13+rpi1 base-passwd_3.6.2 bash_5.2.15-2 binutils_2.41-6+rpi1 binutils-arm-linux-gnueabihf_2.41-6+rpi1 binutils-common_2.41-6+rpi1 bsdextrautils_2.39.3-2 bsdutils_1:2.39.3-2 build-essential_12.10 bzip2_1.0.8-5+b2 cmake_3.27.9-1 cmake-data_3.27.9-1 coreutils_9.1-1 cpp_4:13.2.0-1+rpi1 cpp-12_12.3.0-10+rpi1 cpp-13_13.2.0-5+rpi1 d-shlibs_0.105 dash_0.5.12-6 debconf_1.5.82 debhelper_13.11.8 debianutils_5.14 dh-autoreconf_20 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.10-1 dirmngr_2.2.40-1.1 doxygen_1.9.4-4 dpkg_1.22.1+rpi1 dpkg-dev_1.22.1+rpi1 dwz_0.15-1 e2fsprogs_1.47.0-2 fakeroot_1.32.1-1 file_1:5.45-2 findutils_4.9.0-5 g++_4:13.2.0-1+rpi1 g++-12_12.3.0-10+rpi1 g++-13_13.2.0-5+rpi1 gcc_4:13.2.0-1+rpi1 gcc-12_12.3.0-10+rpi1 gcc-12-base_12.3.0-10+rpi1 gcc-13_13.2.0-5+rpi1 gcc-13-base_13.2.0-5+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gcc-9-base_9.4.0-2+rpi1 gettext_0.21-14 gettext-base_0.21-14 gnupg_2.2.40-1.1 gnupg-l10n_2.2.40-1.1 gnupg-utils_2.2.40-1.1 gpg_2.2.40-1.1 gpg-agent_2.2.40-1.1 gpg-wks-client_2.2.40-1.1 gpg-wks-server_2.2.40-1.1 gpgconf_2.2.40-1.1 gpgsm_2.2.40-1.1 gpgv_2.2.40-1.1 grep_3.11-3 groff-base_1.23.0-3 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 iputils-ping_3:20221126-1 krb5-locales_1.20.1-5 libacl1_2.3.1-3 libapt-pkg6.0_2.7.6 libarchive-zip-perl_1.68-1 libarchive13_3.7.2-1 libasan8_13.2.0-5+rpi1 libassuan0_2.5.6-1 libatomic1_13.2.0-5+rpi1 libattr1_1:2.5.1-4 libaudit-common_1:3.1.1-1 libaudit1_1:3.1.1-1 libbinutils_2.41-6+rpi1 libblkid1_2.39.3-2 libbrotli1_1.1.0-2 libbsd0_0.11.7-4 libbz2-1.0_1.0.8-5+b2 libc-bin_2.37-12+rpi2 libc-dev-bin_2.37-12+rpi2 libc6_2.37-12+rpi2 libc6-dev_2.37-12+rpi2 libcap-ng0_0.8.3-1+b1 libcap2_1:2.66-4 libcap2-bin_1:2.66-4 libcc1-0_13.2.0-5+rpi1 libclang-cpp14_1:14.0.6-16+rpi1 libclang1-14_1:14.0.6-16+rpi1 libcom-err2_1.47.0-2 libcrypt-dev_1:4.4.36-2 libcrypt1_1:4.4.36-2 libctf-nobfd0_2.41-6+rpi1 libctf0_2.41-6+rpi1 libcurl4_8.4.0-2+rpi1 libdb5.3_5.3.28+dfsg2-2 libdebconfclient0_0.271 libdebhelper-perl_13.11.8 libdpkg-perl_1.22.1+rpi1 libedit2_3.1-20230828-1 libelf1_0.188-2.1+rpi1 libexpat1_2.5.0-2 libext2fs2_1.47.0-2 libfakeroot_1.32.1-1 libffi8_3.4.4-1 libfile-find-rule-perl_0.34-3 libfile-stripnondeterminism-perl_1.13.1-1 libgcc-12-dev_12.3.0-10+rpi1 libgcc-13-dev_13.2.0-5+rpi1 libgcc-s1_13.2.0-5+rpi1 libgcrypt20_1.10.2-3 libgdbm-compat4_1.23-3 libgdbm6_1.23-3 libgmp10_2:6.3.0+dfsg-2 libgnutls30_3.8.1-4 libgomp1_13.2.0-5+rpi1 libgpg-error0_1.47-2 libgssapi-krb5-2_1.20.1-5 libhogweed6_3.9.1-2 libicu72_72.1-4 libidn2-0_2.3.4-1 libisl23_0.26-3 libjansson4_2.14-2 libjsoncpp-dev_1.9.5-6 libjsoncpp25_1.9.5-6 libk5crypto3_1.20.1-5 libkeyutils1_1.6.3-2 libkrb5-3_1.20.1-5 libkrb5support0_1.20.1-5 libksba8_1.6.4-2 libldap-2.5-0_2.5.13+dfsg-5+rpi1 libllvm14_1:14.0.6-16+rpi1 liblocale-gettext-perl_1.07-6 liblz4-1_1.9.4-1+rpi1+b1 liblzma5_5.4.4-0.1 libmagic-mgc_1:5.45-2 libmagic1_1:5.45-2 libmd0_1.1.0-1 libmount1_2.39.3-2 libmpc3_1.3.1-1 libmpfr6_4.2.1-1 libncursesw6_6.4+20231016-1 libnettle8_3.9.1-2 libnghttp2-14_1.58.0-1 libnpth0_1.6-3 libnsl-dev_1.3.0-3 libnsl2_1.3.0-3 libnumber-compare-perl_0.03-3 libp11-kit0_0.25.0-5 libpam-cap_1:2.66-4 libpam-modules_1.5.2-9.1 libpam-modules-bin_1.5.2-9.1 libpam-runtime_1.5.2-9.1 libpam0g_1.5.2-9.1 libpcre2-8-0_10.42-4 libpcre3_2:8.39-15 libperl5.36_5.36.0-9 libpipeline1_1.5.7-1 libpkgconf3_1.8.1-1 libproc2-0_2:4.0.4-2 libpsl5_0.21.2-1+b1 libreadline8_8.2-1.3 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+rpi1+b1 libselinux1_3.5-1 libsemanage-common_3.5-1 libsemanage2_3.5-1 libsepol1_3.1-1 libsepol2_3.5-1 libsframe1_2.41-6+rpi1 libsmartcols1_2.39.3-2 libsqlite3-0_3.43.2-1 libss2_1.47.0-2 libssh2-1_1.11.0-3 libssl1.1_1.1.1o-1 libssl3_3.0.11-1 libstdc++-12-dev_12.3.0-10+rpi1 libstdc++-13-dev_13.2.0-5+rpi1 libstdc++6_13.2.0-5+rpi1 libsub-override-perl_0.10-1 libsystemd0_254.5-1+rpi1 libtasn1-6_4.19.0-3 libtext-glob-perl_0.11-3 libtinfo6_6.4+20231016-1 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 libubsan1_13.2.0-5+rpi1 libuchardet0_0.0.8-1 libudev1_254.5-1+rpi1 libunistring2_1.0-2 libunistring5_1.1-2 libuuid1_2.39.3-2 libuv1_1.46.0-2+rpi1 libxapian30_1.4.22-1 libxml2_2.9.14+dfsg-1.3 libxxhash0_0.8.2-2 libz3-4_4.8.12-3.1 libzstd1_1.5.5+dfsg2-2 linux-libc-dev_6.5.6-1+rpi1 login_1:4.13+dfsg1-3 logsave_1.47.0-2 lsb-base_11.6+rpi1 m4_1.4.19-4 make_4.3-4.1 man-db_2.12.0-1 mawk_1.3.4.20230808-1 mount_2.39.3-2 nano_7.2-1 ncurses-base_6.4+20231016-1 ncurses-bin_6.4+20231016-1 netbase_6.4 passwd_1:4.13+dfsg1-3 patch_2.7.6-7 perl_5.36.0-9 perl-base_5.36.0-9 perl-modules-5.36_5.36.0-9 pinentry-curses_1.2.1-1 pkg-config_1.8.1-1 pkgconf_1.8.1-1 pkgconf-bin_1.8.1-1 po-debconf_1.0.21+nmu1 procps_2:4.0.4-2 raspbian-archive-keyring_20120528.2 readline-common_8.2-1.3 rpcsvc-proto_1.4.3-1 sbuild-build-depends-bamtools-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.9-1 sensible-utils_0.0.20 sgml-base_1.31 sysvinit-utils_3.08-3 tar_1.34+dfsg-1.2 tzdata_2023c-10 usrmerge_38 util-linux_2.39.3-2 util-linux-extra_2.39.3-2 xz-utils_5.4.4-0.1 zlib1g_1:1.2.13.dfsg-3 zlib1g-dev_1:1.2.13.dfsg-3
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: Signature made Fri Dec 15 18:13:56 2023 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-5.dsc: no acceptable signature found
dpkg-source: info: extracting bamtools in /<<BUILDDIR>>/bamtools-2.5.2+dfsg
dpkg-source: info: unpacking bamtools_2.5.2+dfsg.orig.tar.xz
dpkg-source: info: unpacking bamtools_2.5.2+dfsg-5.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
dpkg-source: info: applying typo.patch
Check disk space
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User Environment
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APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=trixie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=trixie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
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SCHROOT_SESSION_ID=trixie-staging-armhf-sbuild-57f8da90-7bcf-4447-8aad-a4a4ffb72de5
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package bamtools
dpkg-buildpackage: info: source version 2.5.2+dfsg-5
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
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make[1]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg'
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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_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
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-- Check for working CXX compiler: /usr/bin/c++ - skipped
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-- Found PkgConfig: /usr/bin/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
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-- Performing Test COMPILER_HAS_DEPRECATED_ATTR
-- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success
-- Configuring done (2.1s)
-- Generating done (0.1s)
CMake Warning:
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CMAKE_EXPORT_NO_PACKAGE_REGISTRY
CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY
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-- Build files have been written to: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf
dh_auto_build -a
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make[1]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<BUILDDIR>>/bamtools-2.5.2+dfsg -B/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/CMakeFiles /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make[2]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/BamTools.dir/build.make src/CMakeFiles/BamTools.dir/depend
make -f src/CMakeFiles/BamTools_static.dir/build.make src/CMakeFiles/BamTools_static.dir/depend
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/bamtools-2.5.2+dfsg /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/BamTools.dir/DependInfo.cmake "--color="
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/bamtools-2.5.2+dfsg /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/BamTools_static.dir/DependInfo.cmake "--color="
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/BamTools.dir/build.make src/CMakeFiles/BamTools.dir/build
make -f src/CMakeFiles/BamTools_static.dir/build.make src/CMakeFiles/BamTools_static.dir/build
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
[ 4%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o
[ 4%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o
[ 4%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o
[ 4%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamAlignment.cpp
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamAlignment.cpp
In file included from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:16:
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:16:
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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/include/c++/13/bits/stl_tree.h:65,
from /usr/include/c++/13/map:62,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamMultiReader.h:13,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:15:
/usr/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/13/bits/stl_tree.h:65,
from /usr/include/c++/13/map:62,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamMultiReader.h:13,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamMultiReader.cpp:15:
/usr/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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>
| ^~~~~~~~~~~~~~~
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
/usr/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
[ 6%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o
[ 6%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamReader.cpp
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamReader.cpp
[ 7%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamWriter.cpp
[ 8%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamWriter.cpp
[ 10%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o
[ 10%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamHeader.cpp
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamHeader.cpp
[ 12%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o
[ 12%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamProgram.cpp
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamProgram.cpp
[ 13%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o
[ 14%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamProgramChain.cpp
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamProgramChain.cpp
[ 15%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamReadGroup.cpp
[ 16%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamReadGroup.cpp
[ 17%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamReadGroupDictionary.cpp
[ 18%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamReadGroupDictionary.cpp
[ 19%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamSequence.cpp
[ 20%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamSequenceDictionary.cpp
[ 21%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamHeader_p.cpp
[ 22%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp
[ 23%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamRandomAccessController_p.cpp
[ 24%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamSequence.cpp
In file included from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp:10:
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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/include/c++/13/string:49,
from /usr/include/c++/13/stdexcept:39,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/shared/bamtools_global.h:72,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/api_global.h:14,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:13:
/usr/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
[ 25%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/SamSequenceDictionary.cpp
[ 26%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamReader_p.cpp
[ 27%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamWriter_p.cpp
[ 28%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamIndexFactory_p.cpp
[ 29%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamHeader_p.cpp
[ 30%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp
[ 31%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp
[ 32%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BamDeviceFactory_p.cpp
In file included from /usr/include/c++/13/bits/stl_algo.h:61,
from /usr/include/c++/13/algorithm:61,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18:
/usr/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/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/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/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
[ 33%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BamFile_p.cpp
/usr/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/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/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/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/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/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/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/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/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/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/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);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/13/vector:72,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.h:27,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10:
/usr/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/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>::
| ^~~~~~~~~~~~~~~~~~~
/usr/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/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/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 file included from /usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:589:25:
/usr/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);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
[ 34%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp
/usr/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/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/include/c++/13/bits/stl_vector.h:1296:21,
inlined from 'void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:384:37:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:206:46:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:248:42:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:266:38:
/usr/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 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/include/c++/13/bits/stl_algo.h:4861:18,
inlined from 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:880:9:
/usr/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/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/include/c++/13/bits/stl_algo.h:4861:18,
inlined from 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:880:9:
/usr/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/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);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 35%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BamFtp_p.cpp
[ 36%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BamHttp_p.cpp
In file included from /usr/include/c++/13/vector:72,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.h:28,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10:
/usr/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/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiMerger_p.h:32,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:29,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.cpp:10:
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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/include/c++/13/string:49,
from /usr/include/c++/13/stdexcept:39,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/shared/bamtools_global.h:72,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/api_global.h:14,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamMultiReader_p.h:13:
/usr/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
In file included from /usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:634:27:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:655:35:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:813:28:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:806:28:
/usr/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/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/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:837:23:
/usr/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/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/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/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:179:38:
/usr/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/include/c++/13/bits/stl_algo.h:4861:18,
inlined from 'void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:489:9:
/usr/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/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/include/c++/13/bits/stl_algo.h:4861:18,
inlined from 'void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:489:9:
/usr/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/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);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 37%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BamPipe_p.cpp
[ 38%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BgzfStream_p.cpp
[ 39%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/ByteArray_p.cpp
[ 40%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/HostAddress_p.cpp
[ 41%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/HostInfo_p.cpp
[ 42%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/HttpHeader_p.cpp
[ 43%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/ILocalIODevice_p.cpp
[ 44%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/RollingBuffer_p.cpp
[ 45%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocketEngine_p.cpp
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cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamRandomAccessController_p.cpp
[ 47%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocket_p.cpp
[ 48%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/sam/SamFormatParser_p.cpp
[ 50%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamReader_p.cpp
[ 51%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/sam/SamFormatPrinter_p.cpp
[ 52%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/sam/SamHeaderValidator_p.cpp
[ 53%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/utils/BamException_p.cpp
[ 54%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocketEngine_unix_p.cpp
[ 55%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/bam/BamWriter_p.cpp
[ 56%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamIndexFactory_p.cpp
[ 57%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp
[ 58%] Linking CXX shared library libbamtools.so
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1
/usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/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 '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
[ 58%] Built target BamTools
make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/depend
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/bamtools-2.5.2+dfsg /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/BamTools-utils.dir/DependInfo.cmake "--color="
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/build
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
[ 59%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp
[ 60%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp
[ 61%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BamDeviceFactory_p.cpp
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp: In member function 'bool BamTools::Fasta::FastaPrivate::CreateIndex(const std::string&)':
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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')) {
| ~~^~~~
[ 62%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BamFile_p.cpp
In file included from /usr/include/c++/13/bits/stl_algo.h:61,
from /usr/include/c++/13/algorithm:61,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18:
/usr/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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 file included from /usr/include/c++/13/vector:72,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp:21:
/usr/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/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/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp:208:24:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/utils/bamtools_fasta.cpp:556:24:
/usr/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);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
[ 63%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BamFtp_p.cpp
[ 64%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/utils/bamtools_options.cpp
In file included from /usr/include/c++/13/vector:72,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.h:27,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10:
/usr/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/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 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/include/c++/13/bits/stl_algo.h:4861:18,
inlined from 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:880:9:
/usr/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/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/include/c++/13/bits/stl_algo.h:4861:18,
inlined from 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:880:9:
/usr/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/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/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:589:25:
/usr/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/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/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/include/c++/13/bits/stl_vector.h:1296:21,
inlined from 'void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:384:37:
/usr/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 file included from /usr/include/c++/13/vector:72,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.h:28,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10:
/usr/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/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/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:634:27:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:655:35:
/usr/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::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]',
inlined from 'virtual bool BamTools::Internal::BamToolsIndex::Create()' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:206:46:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:248:42:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:266:38:
/usr/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::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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:813:28:
/usr/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:806:28:
/usr/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/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/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>::
| ^~~~~~~~~~~~~~~~~~~
[ 65%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BamHttp_p.cpp
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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:837:23:
/usr/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/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/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/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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:179:38:
/usr/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/include/c++/13/bits/stl_algo.h:4861:18,
inlined from 'void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:489:9:
/usr/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/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/include/c++/13/bits/stl_algo.h:4861:18,
inlined from 'void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)' at /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:489:9:
/usr/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/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);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 66%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BamPipe_p.cpp
[ 67%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/BgzfStream_p.cpp
[ 68%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/ByteArray_p.cpp
[ 69%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/HostAddress_p.cpp
[ 70%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/utils/bamtools_pileup_engine.cpp
[ 71%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/utils/bamtools_utilities.cpp
[ 72%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/HostInfo_p.cpp
[ 73%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/HttpHeader_p.cpp
[ 74%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/ILocalIODevice_p.cpp
[ 75%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/RollingBuffer_p.cpp
[ 76%] Linking CXX static library libBamTools-utils.a
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -P CMakeFiles/BamTools-utils.dir/cmake_clean_target.cmake
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools-utils.dir/link.txt --verbose=1
/usr/bin/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"
[ 77%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocketEngine_p.cpp
/usr/bin/ranlib libBamTools-utils.a
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[ 77%] Built target BamTools-utils
make -f src/CMakeFiles/bamtools_cmd.dir/build.make src/CMakeFiles/bamtools_cmd.dir/depend
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/bamtools-2.5.2+dfsg /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake "--color="
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/bamtools_cmd.dir/build.make src/CMakeFiles/bamtools_cmd.dir/build
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
[ 78%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools.cpp
[ 79%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocket_p.cpp
[ 80%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_convert.cpp
[ 81%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/sam/SamFormatParser_p.cpp
[ 82%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/sam/SamFormatPrinter_p.cpp
[ 83%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/sam/SamHeaderValidator_p.cpp
[ 84%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/utils/BamException_p.cpp
[ 85%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/internal/io/TcpSocketEngine_unix_p.cpp
[ 86%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_count.cpp
[ 87%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_coverage.cpp
[ 88%] Linking CXX static library libbamtools.a
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -P CMakeFiles/BamTools_static.dir/cmake_clean_target.cmake
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools_static.dir/link.txt --verbose=1
/usr/bin/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
In file included from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/api/BamAlgorithms.h:15,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_count.cpp:12:
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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/include/c++/13/string:49,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_tool.h:14,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_count.h:13,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_count.cpp:10:
/usr/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
/usr/bin/ranlib libbamtools.a
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
[ 88%] Built target BamTools_static
[ 89%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_filter.cpp
[ 90%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_header.cpp
[ 91%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_index.cpp
[ 92%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_merge.cpp
[ 93%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_random.cpp
[ 94%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_resolve.cpp
[ 95%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_revert.cpp
[ 96%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_sort.cpp
[ 97%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_split.cpp
In file included from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_sort.cpp:15:
/<<BUILDDIR>>/bamtools-2.5.2+dfsg/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/include/c++/13/string:49,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_tool.h:14,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_sort.h:13,
from /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_sort.cpp:10:
/usr/include/c++/13/bits/stl_function.h:131:12: note: declared here
131 | struct binary_function
| ^~~~~~~~~~~~~~~
[ 98%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/src/toolkit/bamtools_stats.cpp
[100%] Linking CXX executable bamtools
cd /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bamtools_cmd.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/bamtools-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -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,/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src: libBamTools-utils.a -L/usr/lib/arm-linux-gnueabihf -ljsoncpp libbamtools.so.2.5.2
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
[100%] Built target bamtools_cmd
make[2]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
/usr/bin/cmake -E cmake_progress_start /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/CMakeFiles 0
make[1]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
debian/rules override_dh_auto_test-arch
make[1]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg'
cd obj-* && ln -s src/toolkit/ bin
dh_auto_test --arch
cd obj-arm-linux-gnueabihf && make -j4 test ARGS\+=--verbose ARGS\+=-j4
make[2]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
Running tests...
/usr/bin/ctest --force-new-ctest-process --verbose -j4
UpdateCTestConfiguration from :/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/DartConfiguration.tcl
Parse Config file:/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/DartConfiguration.tcl
UpdateCTestConfiguration from :/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/DartConfiguration.tcl
Parse Config file:/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/DartConfiguration.tcl
Test project /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf
Constructing a list of tests
Done constructing a list of tests
Updating test list for fixtures
Added 0 tests to meet fixture requirements
Checking test dependency graph...
Checking test dependency graph end
test 1
Start 1: bamtools_help
1: Test command: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src/bamtools "--help"
1: Working Directory: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/tests
1: Test timeout computed to be: 1500
test 2
Start 2: bamtools_stats
2: Test command: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/src/bamtools "stats" "-in" "/<<BUILDDIR>>/bamtools-2.5.2+dfsg/tests/data/sam_spec_example.bam"
2: Working Directory: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf/tests
2: Test timeout computed to be: 1500
1:
1: usage: bamtools [--help] COMMAND [ARGS]
1:
1: Available bamtools commands:
1: convert Converts between BAM and a number of other formats
1: count Prints number of alignments in BAM file(s)
1: coverage Prints coverage statistics from the input BAM file
1: filter Filters BAM file(s) by user-specified criteria
1: header Prints BAM header information
1: index Generates index for BAM file
1: merge Merge multiple BAM files into single file
1: random Select random alignments from existing BAM file(s), intended more as a testing tool.
1: resolve Resolves paired-end reads (marking the IsProperPair flag as needed)
1: revert Removes duplicate marks and restores original base qualities
1: sort Sorts the BAM file according to some criteria
1: split Splits a BAM file on user-specified property, creating a new BAM output file for each value found
1: stats Prints some basic statistics from input BAM file(s)
1:
1: See 'bamtools help COMMAND' for more information on a specific command.
1:
1/2 Test #1: bamtools_help .................... Passed 0.01 sec
2:
2: **********************************************
2: Stats for BAM file(s):
2: **********************************************
2:
2: Total reads: 6
2: Mapped reads: 6 (100%)
2: Forward strand: 4 (66.6667%)
2: Reverse strand: 2 (33.3333%)
2: Failed QC: 0 (0%)
2: Duplicates: 0 (0%)
2: Paired-end reads: 2 (33.3333%)
2: 'Proper-pairs': 2 (100%)
2: Both pairs mapped: 2 (100%)
2: Read 1: 1
2: Read 2: 1
2: Singletons: 0 (0%)
2:
2/2 Test #2: bamtools_stats ................... Passed 0.01 sec
100% tests passed, 0 tests failed out of 2
Total Test time (real) = 0.01 sec
make[2]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
make[1]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg'
create-stamp debian/debhelper-build-stamp
dh_prep -a
dh_auto_install -a
cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/<<BUILDDIR>>/bamtools-2.5.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<BUILDDIR>>/bamtools-2.5.2+dfsg -B/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
make -f CMakeFiles/Makefile2 preinstall
make[2]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
make[2]: Nothing to be done for 'preinstall'.
make[2]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
Install the project...
/usr/bin/cmake -P cmake_install.cmake
-- Install configuration: "None"
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.2
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.a
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/bin/bamtools
-- Set runtime path of "/<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/bin/bamtools" to ""
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamAlgorithms.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamAlignment.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamAux.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamConstants.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamIndex.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamMultiReader.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamReader.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/BamWriter.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/IBamIODevice.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamConstants.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamHeader.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamProgram.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamProgramChain.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamReadGroup.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamReadGroupDictionary.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamSequence.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/SamSequenceDictionary.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/api_global.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/bamtools_api_export.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/api/algorithms/Sort.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/include/bamtools/shared/bamtools_global.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.2+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig/bamtools-1.pc
make[1]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg/obj-arm-linux-gnueabihf'
debian/rules override_dh_install-arch
make[1]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.2+dfsg'
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 /<<BUILDDIR>>/bamtools-2.5.2+dfsg/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 '/<<BUILDDIR>>/bamtools-2.5.2+dfsg'
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
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/bamtools/usr/bin/bamtools was not linked against ld-linux-armhf.so.3 (it uses none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'bamtools' in '../bamtools_2.5.2+dfsg-5_armhf.deb'.
dpkg-deb: building package 'libbamtools2.5.2-dbgsym' in '../libbamtools2.5.2-dbgsym_2.5.2+dfsg-5_armhf.deb'.
dpkg-deb: building package 'libbamtools-dev' in '../libbamtools-dev_2.5.2+dfsg-5_armhf.deb'.
dpkg-deb: building package 'bamtools-dbgsym' in '../bamtools-dbgsym_2.5.2+dfsg-5_armhf.deb'.
dpkg-deb: building package 'libbamtools2.5.2' in '../libbamtools2.5.2_2.5.2+dfsg-5_armhf.deb'.
dpkg-genbuildinfo --build=any -O../bamtools_2.5.2+dfsg-5_armhf.buildinfo
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> -O../bamtools_2.5.2+dfsg-5_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 2023-12-18T04:54:22Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
bamtools_2.5.2+dfsg-5_armhf.changes:
------------------------------------
Format: 1.8
Date: Fri, 15 Dec 2023 19:09:45 +0100
Source: bamtools
Binary: bamtools bamtools-dbgsym libbamtools-dev libbamtools2.5.2 libbamtools2.5.2-dbgsym
Architecture: armhf
Version: 2.5.2+dfsg-5
Distribution: trixie-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.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: 1043881
Changes:
bamtools (2.5.2+dfsg-5) unstable; urgency=medium
.
* d/control: add myself to uploaders.
* d/rules: preserve pristine Doxyfile. (Closes: #1043881)
* typo.patch: new: fix typo caught by lintian.
Checksums-Sha1:
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Files:
a7582d7f4b4e34f72ec80b2023afbbcc 3401120 debug optional bamtools-dbgsym_2.5.2+dfsg-5_armhf.deb
6805a28977cd077f7f7d0e4408a186d1 8068 science optional bamtools_2.5.2+dfsg-5_armhf.buildinfo
939543e80a6c85e6eb4a166d78afe212 156236 science optional bamtools_2.5.2+dfsg-5_armhf.deb
b607f5bd91aa9a2d15c0a09e300982b5 185128 libdevel optional libbamtools-dev_2.5.2+dfsg-5_armhf.deb
8d2cbbdfb4c91efa32b90a625a3d2617 2702996 debug optional libbamtools2.5.2-dbgsym_2.5.2+dfsg-5_armhf.deb
8a77fe0c3556d0c0fb77314745f9b684 133048 libs optional libbamtools2.5.2_2.5.2+dfsg-5_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
bamtools-dbgsym_2.5.2+dfsg-5_armhf.deb
--------------------------------------
new Debian package, version 2.0.
size 3401120 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-5
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 3425
Depends: bamtools (= 2.5.2+dfsg-5)
Section: debug
Priority: optional
Description: debug symbols for bamtools
Build-Ids: c34168add27444e0edd1231f5fc6a6c926df9637
drwxr-xr-x root/root 0 2023-12-15 18:09 ./
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/debug/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/debug/.build-id/c3/
-rw-r--r-- root/root 3496332 2023-12-15 18:09 ./usr/lib/debug/.build-id/c3/4168add27444e0edd1231f5fc6a6c926df9637.debug
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/
lrwxrwxrwx root/root 0 2023-12-15 18:09 ./usr/share/doc/bamtools-dbgsym -> bamtools
bamtools_2.5.2+dfsg-5_armhf.deb
-------------------------------
new Debian package, version 2.0.
size 156236 bytes: control archive=1480 bytes.
1810 bytes, 37 lines control
551 bytes, 8 lines md5sums
Package: bamtools
Version: 2.5.2+dfsg-5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 513
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 2023-12-15 18:09 ./
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/bin/
-rwxr-xr-x root/root 505368 2023-12-15 18:09 ./usr/bin/bamtools
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/bamtools/
-rw-r--r-- root/root 262 2023-12-15 18:09 ./usr/share/doc/bamtools/README.test
-rw-r--r-- root/root 1465 2023-12-15 18:09 ./usr/share/doc/bamtools/changelog.Debian.gz
-rw-r--r-- root/root 1665 2023-12-15 18:09 ./usr/share/doc/bamtools/copyright
-rw-r--r-- root/root 352 2023-12-15 18:09 ./usr/share/doc/bamtools/filter_script
-rw-r--r-- root/root 1607 2023-12-15 18:09 ./usr/share/doc/bamtools/run-unit-test
-rw-r--r-- root/root 375 2023-12-15 18:09 ./usr/share/doc/bamtools/sam_spec_example.bam
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/man/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/man/man1/
-rw-r--r-- root/root 792 2023-12-15 18:09 ./usr/share/man/man1/bamtools.1.gz
libbamtools-dev_2.5.2+dfsg-5_armhf.deb
--------------------------------------
new Debian package, version 2.0.
size 185128 bytes: control archive=1616 bytes.
969 bytes, 25 lines control
1972 bytes, 26 lines md5sums
Package: libbamtools-dev
Source: bamtools
Version: 2.5.2+dfsg-5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1031
Depends: libbamtools2.5.2 (= 2.5.2+dfsg-5), zlib1g-dev
Suggests: libbamtools-doc (= 2.5.2+dfsg-5)
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 2023-12-15 18:09 ./
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/include/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/include/bamtools/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/include/bamtools/api/
-rw-r--r-- root/root 848 2021-06-20 19:43 ./usr/include/bamtools/api/BamAlgorithms.h
-rw-r--r-- root/root 22982 2021-06-20 19:43 ./usr/include/bamtools/api/BamAlignment.h
-rw-r--r-- root/root 10700 2021-06-20 19:43 ./usr/include/bamtools/api/BamAux.h
-rw-r--r-- root/root 9282 2021-06-20 19:43 ./usr/include/bamtools/api/BamConstants.h
-rw-r--r-- root/root 2754 2021-06-20 19:43 ./usr/include/bamtools/api/BamIndex.h
-rw-r--r-- root/root 4242 2021-06-20 19:43 ./usr/include/bamtools/api/BamMultiReader.h
-rw-r--r-- root/root 3780 2021-06-20 19:43 ./usr/include/bamtools/api/BamReader.h
-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 2023-12-15 18:09 ./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 2023-12-15 18:09 ./usr/include/bamtools/api/bamtools_api_export.h
drwxr-xr-x root/root 0 2023-12-15 18:09 ./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 2023-12-15 18:09 ./usr/lib/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 922612 2023-12-15 18:09 ./usr/lib/arm-linux-gnueabihf/libbamtools.a
lrwxrwxrwx root/root 0 2023-12-15 18:09 ./usr/lib/arm-linux-gnueabihf/libbamtools.so -> libbamtools.so.2.5.2
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/arm-linux-gnueabihf/pkgconfig/
-rw-r--r-- root/root 263 2023-12-15 18:09 ./usr/lib/arm-linux-gnueabihf/pkgconfig/bamtools-1.pc
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/cmake/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/cmake/bamtools/
-rw-r--r-- root/root 1574 2023-12-15 18:09 ./usr/share/cmake/bamtools/bamtools-config.cmake
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/libbamtools-dev/
-rw-r--r-- root/root 1468 2023-12-15 18:09 ./usr/share/doc/libbamtools-dev/changelog.Debian.gz
-rw-r--r-- root/root 1665 2023-12-15 18:09 ./usr/share/doc/libbamtools-dev/copyright
libbamtools2.5.2-dbgsym_2.5.2+dfsg-5_armhf.deb
----------------------------------------------
new Debian package, version 2.0.
size 2702996 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-5
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2752
Depends: libbamtools2.5.2 (= 2.5.2+dfsg-5)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libbamtools2.5.2
Build-Ids: b447da9da0a2fcb42076a8a893a48453a04ad690
drwxr-xr-x root/root 0 2023-12-15 18:09 ./
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/debug/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/debug/.build-id/b4/
-rw-r--r-- root/root 2807428 2023-12-15 18:09 ./usr/lib/debug/.build-id/b4/47da9da0a2fcb42076a8a893a48453a04ad690.debug
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/
lrwxrwxrwx root/root 0 2023-12-15 18:09 ./usr/share/doc/libbamtools2.5.2-dbgsym -> libbamtools2.5.2
libbamtools2.5.2_2.5.2+dfsg-5_armhf.deb
---------------------------------------
new Debian package, version 2.0.
size 133048 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-5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 424
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.
drwxr-xr-x root/root 0 2023-12-15 18:09 ./
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 419232 2023-12-15 18:09 ./usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.2
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/
drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/libbamtools2.5.2/
-rw-r--r-- root/root 1469 2023-12-15 18:09 ./usr/share/doc/libbamtools2.5.2/changelog.Debian.gz
-rw-r--r-- root/root 1665 2023-12-15 18:09 ./usr/share/doc/libbamtools2.5.2/copyright
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 116460
Build-Time: 140
Distribution: trixie-staging
Host Architecture: armhf
Install-Time: 228
Job: bamtools_2.5.2+dfsg-5
Machine Architecture: armhf
Package: bamtools
Package-Time: 387
Source-Version: 2.5.2+dfsg-5
Space: 116460
Status: successful
Version: 2.5.2+dfsg-5
--------------------------------------------------------------------------------
Finished at 2023-12-18T04:54:22Z
Build needed 00:06:27, 116460k disk space