bamtools →
2.5.1+dfsg-5 →
armhf → 2019-12-16 05:23:06
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-01
+==============================================================================+
| bamtools 2.5.1+dfsg-5 (armhf) Mon, 16 Dec 2019 05:06:16 +0000 |
+==============================================================================+
Package: bamtools
Version: 2.5.1+dfsg-5
Source Version: 2.5.1+dfsg-5
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/bullseye-staging-armhf-sbuild-ecf42542-8a79-40f7-9be8-9b1f4ce4ca4c' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [11.5 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.8 MB]
Fetched 24.3 MB in 28s (873 kB/s)
Reading package lists...
+------------------------------------------------------------------------------+
| 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 210 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main bamtools 2.5.1+dfsg-5 (dsc) [2388 B]
Get:2 http://172.17.0.1/private bullseye-staging/main bamtools 2.5.1+dfsg-5 (tar) [197 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main bamtools 2.5.1+dfsg-5 (diff) [10.7 kB]
Fetched 210 kB in 0s (1963 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/bamtools-yYoRJw/bamtools-2.5.1+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/bamtools-yYoRJw' 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-07LuFu/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-07LuFu/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-07LuFu/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: 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 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: 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-07LuFu/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Packages [433 B]
Fetched 2109 B in 1s (2916 B/s)
Reading package lists...
W: copy:///<<BUILDDIR>>/resolver-07LuFu/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 35506D9A48F77B2E
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:
libpam-cap netbase
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 19 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12199 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) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen
Filtered Build-Depends: debhelper-compat (= 12), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen
dpkg-deb: building package 'sbuild-build-depends-bamtools-dummy' in '/<<BUILDDIR>>/resolver-07LuFu/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-07LuFu/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Sources [533 B]
Get:5 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Packages [613 B]
Fetched 2479 B in 1s (3172 B/s)
Reading package lists...
W: copy:///<<BUILDDIR>>/resolver-07LuFu/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 35506D9A48F77B2E
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:
libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils 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 libclang1-9 libcroco3 libcurl3-gnutls
libdebhelper-perl libedit2 libelf1 libexpat1
libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libicu63
libjsoncpp-dev libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 libllvm9 liblocale-gettext-perl libmagic-mgc libmagic1
libncurses6 libnghttp2-14 libpipeline1 libprocps7 libpsl5 librhash0 librtmp1
libsigsegv2 libssh2-1 libssl1.1 libsub-override-perl libtinfo5 libtool
libuchardet0 libuv1 libxapian30 libxml2 libz3-4 m4 man-db po-debconf procps
sensible-utils zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation cmake-doc ninja-build dh-make doxygen-latex doxygen-doc doxygen-gui
graphviz gettext-doc libasprintf-dev libgettextpo-dev groff lrzip krb5-doc
krb5-user libtool-doc gfortran | fortran95-compiler gcj-jdk xapian-tools
m4-doc apparmor less www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx ca-certificates libarchive-cpio-perl libglib2.0-data
shared-mime-info xdg-user-dirs krb5-locales libgpm2 publicsuffix libltdl-dev
libmail-sendmail-perl psmisc
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils 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 libclang1-9 libcroco3 libcurl3-gnutls
libdebhelper-perl libedit2 libelf1 libexpat1
libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libicu63
libjsoncpp-dev libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 libllvm9 liblocale-gettext-perl libmagic-mgc libmagic1
libncurses6 libnghttp2-14 libpipeline1 libprocps7 libpsl5 librhash0 librtmp1
libsigsegv2 libssh2-1 libssl1.1 libsub-override-perl libtinfo5 libtool
libuchardet0 libuv1 libxapian30 libxml2 libz3-4 m4 man-db po-debconf procps
sbuild-build-depends-bamtools-dummy sensible-utils zlib1g-dev
0 upgraded, 69 newly installed, 0 to remove and 19 not upgraded.
Need to get 60.0 MB of archives.
After this operation, 243 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-07LuFu/apt_archive ./ sbuild-build-depends-bamtools-dummy 0.invalid.0 [896 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf liblocale-gettext-perl armhf 1.07-4 [18.1 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.1+20191019-1 [316 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-3 [782 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.1-2 [26.6 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.0-1 [1261 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.1+20191019-1 [79.5 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf libprocps7 armhf 2:3.3.15-2 [58.9 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf procps armhf 2:3.3.15-2 [235 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.37-6 [253 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.37-6 [111 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.37-6 [66.2 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf cmake-data all 3.15.4-1+rpi1 [1580 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-2 [7974 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.4+dfsg1-8 [593 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libarchive13 armhf 3.4.0-1+b1 [292 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.7-5 [257 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6-6 [14.0 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.17-6+b1 [61.5 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.17-6+b1 [112 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1d-2 [1268 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.17-6+b1 [316 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.17-6+b1 [134 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf libnghttp2-14 armhf 1.40.0-1 [73.9 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf libpsl5 armhf 0.20.2-2 [52.6 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b1 [54.3 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf libssh2-1 armhf 1.8.0-2.1 [126 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libcurl3-gnutls armhf 7.67.0-2 [284 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.9-1 [71.5 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf libjsoncpp1 armhf 1.7.4-3 [66.2 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf librhash0 armhf 1.3.8-1 [132 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf libuv1 armhf 1.33.1-2 [112 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf cmake armhf 3.15.4-1+rpi1 [2540 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf d-shlibs all 0.88 [17.4 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-11 [547 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 12.7.2 [174 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.67-1 [104 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.6.3-1 [23.6 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.6.3-1 [14.6 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.62.3-2 [1137 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 12.7.2 [1018 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libedit2 armhf 3.1-20191025-1 [79.3 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libz3-4 armhf 4.8.7-2 [5530 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libllvm9 armhf 1:9.0.0-4+rpi1 [13.1 MB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libclang1-9 armhf 1:9.0.0-4+rpi1 [5580 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf libxapian30 armhf 1.4.12-1 [956 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf doxygen armhf 1.8.16-1 [7624 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf help2man armhf 1.47.11 [180 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf libjsoncpp-dev armhf 1.7.4-3 [78.6 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Setting up libexpat1:armhf (2.2.9-1) ...
Setting up libpipeline1:armhf (1.5.1-2) ...
Setting up libxapian30:armhf (1.4.12-1) ...
Setting up libkeyutils1:armhf (1.6-6) ...
Setting up libpsl5:armhf (0.20.2-2) ...
Setting up libmagic-mgc (1:5.37-6) ...
Setting up libarchive-zip-perl (1.67-1) ...
Setting up libglib2.0-0:armhf (2.62.3-2) ...
No schema files found: doing nothing.
Setting up libssl1.1:armhf (1.1.1d-2) ...
Setting up libprocps7:armhf (2:3.3.15-2) ...
Setting up libdebhelper-perl (12.7.2) ...
Setting up libbrotli1:armhf (1.0.7-5) ...
Setting up libnghttp2-14:armhf (1.40.0-1) ...
Setting up libmagic1:armhf (1:5.37-6) ...
Setting up gettext-base (0.19.8.1-10) ...
Setting up file (1:5.37-6) ...
Setting up libicu63:armhf (63.2-2) ...
Setting up libkrb5support0:armhf (1.17-6+b1) ...
Setting up autotools-dev (20180224.1) ...
Setting up libz3-4:armhf (4.8.7-2) ...
Setting up libuv1:armhf (1.33.1-2) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b1) ...
Setting up libncurses6:armhf (6.1+20191019-1) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up autopoint (0.19.8.1-10) ...
Setting up d-shlibs (0.88) ...
Setting up libk5crypto3:armhf (1.17-6+b1) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Setting up sensible-utils (0.0.12+nmu1) ...
Setting up librhash0:armhf (1.3.8-1) ...
Setting up libuchardet0:armhf (0.0.6-3) ...
Setting up procps (2:3.3.15-2) ...
update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode
Setting up libsub-override-perl (0.09-2) ...
Setting up libssh2-1:armhf (1.8.0-2.1) ...
Setting up cmake-data (3.15.4-1+rpi1) ...
Setting up libkrb5-3:armhf (1.17-6+b1) ...
Setting up libbsd0:armhf (0.10.0-1) ...
Setting up libtinfo5:armhf (6.1+20191019-1) ...
Setting up libelf1:armhf (0.176-1.1) ...
Setting up libxml2:armhf (2.9.4+dfsg1-8) ...
Setting up liblocale-gettext-perl (1.07-4) ...
Setting up libjsoncpp1:armhf (1.7.4-3) ...
Setting up libfile-stripnondeterminism-perl (1.6.3-1) ...
Setting up libjsoncpp-dev:armhf (1.7.4-3) ...
Setting up libtool (2.4.6-11) ...
Setting up libarchive13:armhf (3.4.0-1+b1) ...
Setting up libedit2:armhf (3.1-20191025-1) ...
Setting up m4 (1.4.18-4) ...
Setting up help2man (1.47.11) ...
Setting up bsdmainutils (11.1.2) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up libgssapi-krb5-2:armhf (1.17-6+b1) ...
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up autoconf (2.69-11) ...
Setting up dh-strip-nondeterminism (1.6.3-1) ...
Setting up dwz (0.13-5) ...
Setting up groff-base (1.22.4-3) ...
Setting up libllvm9:armhf (1:9.0.0-4+rpi1) ...
Setting up automake (1:1.16.1-4) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up gettext (0.19.8.1-10) ...
Setting up libclang1-9 (1:9.0.0-4+rpi1) ...
Setting up libcurl3-gnutls:armhf (7.67.0-2) ...
Setting up man-db (2.9.0-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up doxygen (1.8.16-1) ...
Setting up cmake (3.15.4-1+rpi1) ...
Setting up po-debconf (1.0.21) ...
Setting up debhelper (12.7.2) ...
Setting up dh-autoreconf (19) ...
Setting up sbuild-build-depends-bamtools-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.29-3+rpi1) ...
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.33.1-5+rpi1 dpkg-dev_1.19.7 g++-9_9.2.1-19+rpi1+b1 gcc-9_9.2.1-19+rpi1+b1 libc6-dev_2.29-3+rpi1 libstdc++-9-dev_9.2.1-19+rpi1+b1 libstdc++6_9.2.1-19+rpi1+b1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_1.8.4 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.46 bash_5.0-5 binutils_2.33.1-5+rpi1 binutils-arm-linux-gnueabihf_2.33.1-5+rpi1 binutils-common_2.33.1-5+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 cmake_3.15.4-1+rpi1 cmake-data_3.15.4-1+rpi1 coreutils_8.30-3 cpp_4:9.2.1-3.1+rpi1 cpp-9_9.2.1-19+rpi1+b1 d-shlibs_0.88 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.7.2 debianutils_4.9 dh-autoreconf_19 dh-strip-nondeterminism_1.6.3-1 diffutils_1:3.7-3 dirmngr_2.2.17-3+b1 doxygen_1.8.16-1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.4-1 fakeroot_1.24-1 fdisk_2.34-0.1 file_1:5.37-6 findutils_4.7.0-1 g++_4:9.2.1-3.1+rpi1 g++-9_9.2.1-19+rpi1+b1 gcc_4:9.2.1-3.1+rpi1 gcc-9_9.2.1-19+rpi1+b1 gcc-9-base_9.2.1-19+rpi1+b1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.17-3 gnupg-l10n_2.2.17-3 gnupg-utils_2.2.17-3+b1 gpg_2.2.17-3+b1 gpg-agent_2.2.17-3+b1 gpg-wks-client_2.2.17-3+b1 gpg-wks-server_2.2.17-3+b1 gpgconf_2.2.17-3+b1 gpgsm_2.2.17-3+b1 gpgv_2.2.17-3+b1 grep_3.3-1 groff-base_1.22.4-3 gzip_1.9-3 help2man_1.47.11 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20190709-2 libacl1_2.2.53-5 libapt-pkg5.0_1.8.4 libarchive-zip-perl_1.67-1 libarchive13_3.4.0-1+b1 libasan5_9.2.1-19+rpi1+b1 libassuan0_2.5.3-7 libatomic1_9.2.1-19+rpi1+b1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2+b1 libbinutils_2.33.1-5+rpi1 libblkid1_2.34-0.1 libbrotli1_1.0.7-5 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.29-3+rpi1 libc-dev-bin_2.29-3+rpi1 libc6_2.29-3+rpi1 libc6-dev_2.29-3+rpi1 libcap-ng0_0.7.9-2.1 libcap2_1:2.27-1 libcap2-bin_1:2.27-1 libcc1-0_9.2.1-19+rpi1+b1 libclang1-9_1:9.0.0-4+rpi1 libcom-err2_1.45.4-1 libcroco3_0.6.13-1 libcurl3-gnutls_7.67.0-2 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.250 libdebhelper-perl_12.7.2 libdpkg-perl_1.19.7 libedit2_3.1-20191025-1 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.4-1 libfakeroot_1.24-1 libfdisk1_2.34-0.1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.6.3-1 libgcc-9-dev_9.2.1-19+rpi1+b1 libgcc1_1:9.2.1-19+rpi1+b1 libgcrypt20_1.8.5-3 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.62.3-2 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.10-5 libgomp1_9.2.1-19+rpi1+b1 libgpg-error0_1.36-7 libgssapi-krb5-2_1.17-6+b1 libhogweed5_3.5.1+really3.5.1-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libisl22_0.22-2 libjsoncpp-dev_1.7.4-3 libjsoncpp1_1.7.4-3 libk5crypto3_1.17-6+b1 libkeyutils1_1.6-6 libkrb5-3_1.17-6+b1 libkrb5support0_1.17-6+b1 libksba8_1.3.5-2 libldap-2.4-2_2.4.48+dfsg-1+b2 libldap-common_2.4.48+dfsg-1 libllvm9_1:9.0.0-4+rpi1 liblocale-gettext-perl_1.07-4 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.37-6 libmagic1_1:5.37-6 libmount1_2.34-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncurses6_6.1+20191019-1 libncursesw6_6.1+20191019-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 libnpth0_1.6-1 libp11-kit0_0.23.18.1-2 libpam-cap_1:2.27-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-3 libpcre3_2:8.39-12 libperl5.30_5.30.0-9 libpipeline1_1.5.1-2 libprocps7_2:3.3.15-2 libpsl5_0.20.2-2 libreadline7_7.0-5 libreadline8_8.0-3 librhash0_1.3.8-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b1 libsasl2-2_2.1.27+dfsg-1+b1 libsasl2-modules-db_2.1.27+dfsg-1+b1 libseccomp2_2.4.2-2+rpi1 libselinux1_2.9-3 libsemanage-common_2.9-3 libsemanage1_2.9-3 libsepol1_2.9-2 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1 libsqlite3-0_3.30.1-1 libss2_1.45.4-1 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1d-2 libstdc++-9-dev_9.2.1-19+rpi1+b1 libstdc++6_9.2.1-19+rpi1+b1 libsub-override-perl_0.09-2 libsystemd0_243-8+rpi1 libtasn1-6_4.14-3 libtinfo5_6.1+20191019-1 libtinfo6_6.1+20191019-1 libtool_2.4.6-11 libubsan1_9.2.1-19+rpi1+b1 libuchardet0_0.0.6-3 libudev1_243-8+rpi1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libuv1_1.33.1-2 libxapian30_1.4.12-1 libxml2_2.9.4+dfsg1-8 libz3-4_4.8.7-2 libzstd1_1.4.4+dfsg-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.7-2 logsave_1.45.4-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-1 mawk_1.3.3-17 mount_2.34-0.1 ncurses-base_6.1+20191019-1 ncurses-bin_6.1+20191019-1 netbase_5.7 passwd_1:4.7-2 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.30_5.30.0-9 pinentry-curses_1.1.0-3 po-debconf_1.0.21 procps_2:3.3.15-2 raspbian-archive-keyring_20120528.2 readline-common_8.0-3 sbuild-build-depends-bamtools-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-1 tar_1.30+dfsg-6 tzdata_2019c-3 util-linux_2.34-0.1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Wed Dec 11 07:36:22 2019 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./bamtools_2.5.1+dfsg-5.dsc
dpkg-source: info: extracting bamtools in /<<BUILDDIR>>/bamtools-2.5.1+dfsg
dpkg-source: info: unpacking bamtools_2.5.1+dfsg.orig.tar.gz
dpkg-source: info: unpacking bamtools_2.5.1+dfsg-5.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying doxygen-tweak
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Check disc space
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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=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-ecf42542-8a79-40f7-9be8-9b1f4ce4ca4c
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
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dpkg-buildpackage: info: source package bamtools
dpkg-buildpackage: info: source version 2.5.1+dfsg-5
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
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make[1]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg'
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cd obj-arm-linux-gnueabihf && 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_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf -DBUILD_SHARED_LIBS=on ..
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CMake Deprecation Warning at CMakeLists.txt:22 (cmake_policy):
The OLD behavior for policy CMP0042 will be removed from a future version
of CMake.
The cmake-policies(7) manual explains that the OLD behaviors of all
policies are deprecated and that a policy should be set to OLD only under
specific short-term circumstances. Projects should be ported to the NEW
behavior and not rely on setting a policy to OLD.
-- Could NOT find PkgConfig (missing: PKG_CONFIG_EXECUTABLE)
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CMAKE_EXPORT_NO_PACKAGE_REGISTRY
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make[1]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
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cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/bamtools-2.5.1+dfsg /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools.dir/DependInfo.cmake --color=
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[ 3%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamAlignment.cpp.o
[ 3%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamMultiReader.cpp.o
[ 5%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamReader.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamAlignment.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/BamAlignment.cpp
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamMultiReader.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/BamMultiReader.cpp
[ 6%] Building CXX object src/api/CMakeFiles/BamTools.dir/BamWriter.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamReader.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/BamReader.cpp
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/BamWriter.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/BamWriter.cpp
[ 8%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamHeader.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamHeader.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/SamHeader.cpp
[ 10%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamProgram.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamProgram.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/SamProgram.cpp
[ 11%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamProgramChain.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamProgramChain.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/SamProgramChain.cpp
[ 13%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamReadGroup.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamReadGroup.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/SamReadGroup.cpp
[ 15%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.cpp
[ 16%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamSequence.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamSequence.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/SamSequence.cpp
[ 18%] Building CXX object src/api/CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.cpp
[ 20%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/bam/BamHeader_p.cpp
[ 22%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/bam/BamMultiReader_p.cpp
[ 23%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/bam/BamRandomAccessController_p.cpp
[ 25%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/bam/BamReader_p.cpp
[ 27%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/bam/BamWriter_p.cpp
[ 28%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamIndexFactory_p.cpp
[ 30%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp
[ 32%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp
[ 33%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/BamDeviceFactory_p.cpp
[ 35%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/BamFile_p.cpp
In file included from /usr/include/c++/9/vector:72,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.h:25,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BtiBlock&}; _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator<BamTools::Internal::BtiBlock>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<BamTools::Internal::BtiBlock>::iterator' {aka '__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator<BamTools::Internal::BtiReferenceSummary>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<BamTools::Internal::BtiReferenceSummary>::iterator' {aka '__gnu_cxx::__normal_iterator<BamTools::Internal::BtiReferenceSummary*, std::vector<BamTools::Internal::BtiReferenceSummary> >'} changed in GCC 7.1
/usr/include/c++/9/bits/vector.tcc: In member function 'void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<BamTools::Internal::BtiReferenceSummary*, std::vector<BamTools::Internal::BtiReferenceSummary> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.h:25,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamToolsIndex_p.cpp:10:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BaiAlignmentChunk&}; _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator<BamTools::Internal::BaiAlignmentChunk>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<BamTools::Internal::BaiAlignmentChunk>::iterator' {aka '__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In member function 'void BamTools::Internal::BamStandardIndex::SaveAlignmentChunkToBin(BamTools::Internal::BaiBinMap&, const uint32_t&, const uint64_t&, const uint64_t&)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<BamTools::Internal::BaiAlignmentChunk*, std::vector<BamTools::Internal::BaiAlignmentChunk> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]':
/usr/include/c++/9/bits/vector.tcc:509:5: note: parameter passing for argument of type 'std::vector<long long unsigned int>::iterator' {aka '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >'} changed in GCC 7.1
509 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void BamTools::Internal::BamStandardIndex::SaveLinearOffsetEntry(BamTools::Internal::BaiLinearOffsetVector&, const int&, const int&, const uint64_t&)':
/usr/include/c++/9/bits/stl_vector.h:957:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
957 | _M_fill_insert(end(), __new_size - size(), __x);
| ^~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.h:26,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:10:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator<long long int>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<long long int>::iterator' {aka '__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
[ 37%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamFtp_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BamFtp_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/BamFtp_p.cpp
[ 38%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamHttp_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BamHttp_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/BamHttp_p.cpp
/usr/include/c++/9/bits/stl_vector.h: In member function 'virtual bool BamTools::Internal::BamToolsIndex::Create()':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<BamTools::Internal::BtiBlock*, std::vector<BamTools::Internal::BtiBlock> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function 'void BamTools::Internal::BamStandardIndex::CalculateCandidateOffsets(const BamTools::Internal::BaiReferenceSummary&, const uint64_t&, std::set<short unsigned int>&, std::vector<long long int>&)':
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
[ 40%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BamPipe_p.cpp.o
In file included from /usr/include/c++/9/algorithm:62,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >' changed in GCC 7.1
1839 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >' changed in GCC 7.1
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BamPipe_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/BamPipe_p.cpp
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
In file included from /usr/include/c++/9/bits/stl_algo.h:61,
from /usr/include/c++/9/algorithm:62,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >; _Distance = int; _Tp = long long int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >' changed in GCC 7.1
1939 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1939:5: 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++/9/bits/stl_algo.h:1939:5: 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++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >' changed in GCC 7.1
1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h: In member function 'void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)':
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/bits/stl_algo.h:61,
from /usr/include/c++/9/algorithm:62,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >; _Distance = int; _Tp = long long unsigned int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/index/BamStandardIndex_p.cpp:18:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
1939 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h: In member function 'void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)':
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[ 42%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/BgzfStream_p.cpp
[ 44%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/ByteArray_p.cpp
[ 45%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HostAddress_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/HostAddress_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp
/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp: In member function 'void BamTools::Internal::HostAddress::Clear()':
/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp:273:49: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'struct BamTools::Internal::IPv6Address'; use assignment or value-initialization instead [-Wclass-memaccess]
273 | memset(&m_ip6Address, 0, sizeof(IPv6Address));
| ^
In file included from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.cpp:10:
/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/HostAddress_p.h:31:8: note: 'struct BamTools::Internal::IPv6Address' declared here
31 | struct IPv6Address
| ^~~~~~~~~~~
[ 47%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HostInfo_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/HostInfo_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/HostInfo_p.cpp
[ 49%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/HttpHeader_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/HttpHeader_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/HttpHeader_p.cpp
[ 50%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/ILocalIODevice_p.cpp
[ 52%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/RollingBuffer_p.cpp
[ 54%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocket_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/TcpSocket_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/TcpSocket_p.cpp
[ 55%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/TcpSocketEngine_p.cpp
[ 57%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_unix_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_unix_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/io/TcpSocketEngine_unix_p.cpp
[ 59%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/sam/SamFormatParser_p.cpp
[ 61%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/sam/SamFormatPrinter_p.cpp
[ 62%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/sam/SamHeaderValidator_p.cpp
[ 64%] Building CXX object src/api/CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -o CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api/internal/utils/BamException_p.cpp
[ 66%] Linking CXX shared library libbamtools.so
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1
/usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libbamtools.so.2.5.1 -o libbamtools.so.2.5.1 CMakeFiles/BamTools.dir/BamAlignment.cpp.o CMakeFiles/BamTools.dir/BamMultiReader.cpp.o CMakeFiles/BamTools.dir/BamReader.cpp.o CMakeFiles/BamTools.dir/BamWriter.cpp.o CMakeFiles/BamTools.dir/SamHeader.cpp.o CMakeFiles/BamTools.dir/SamProgram.cpp.o CMakeFiles/BamTools.dir/SamProgramChain.cpp.o CMakeFiles/BamTools.dir/SamReadGroup.cpp.o CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o CMakeFiles/BamTools.dir/SamSequence.cpp.o CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools.dir/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools.dir/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools.dir/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools.dir/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools.dir/internal/io/TcpSocketEngine_unix_p.cpp.o CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o -lz
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api && /usr/bin/cmake -E cmake_symlink_library libbamtools.so.2.5.1 libbamtools.so.2.5.1 libbamtools.so
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
[ 66%] Built target BamTools
make -f src/utils/CMakeFiles/BamTools-utils.dir/build.make src/utils/CMakeFiles/BamTools-utils.dir/depend
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/bamtools-2.5.1+dfsg /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils/CMakeFiles/BamTools-utils.dir/DependInfo.cmake --color=
Scanning dependencies of target BamTools-utils
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
make -f src/utils/CMakeFiles/BamTools-utils.dir/build.make src/utils/CMakeFiles/BamTools-utils.dir/build
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
[ 67%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_fasta.cpp.o
[ 71%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_pileup_engine.cpp.o
[ 71%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_options.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /usr/bin/c++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_fasta.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils/bamtools_fasta.cpp
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /usr/bin/c++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_options.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils/bamtools_options.cpp
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /usr/bin/c++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_pileup_engine.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils/bamtools_pileup_engine.cpp
[ 72%] Building CXX object src/utils/CMakeFiles/BamTools-utils.dir/bamtools_utilities.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /usr/bin/c++ -DBAMTOOLS_UTILS_LIBRARY -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/BamTools-utils.dir/bamtools_utilities.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils/bamtools_utilities.cpp
In file included from /usr/include/c++/9/vector:72,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils/bamtools_fasta.cpp:20:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Fasta::FastaPrivate::FastaIndexData&}; _Tp = BamTools::Fasta::FastaPrivate::FastaIndexData; _Alloc = std::allocator<BamTools::Fasta::FastaPrivate::FastaIndexData>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<BamTools::Fasta::FastaPrivate::FastaIndexData>::iterator' {aka '__gnu_cxx::__normal_iterator<BamTools::Fasta::FastaPrivate::FastaIndexData*, std::vector<BamTools::Fasta::FastaPrivate::FastaIndexData> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils/bamtools_fasta.cpp:20:
/usr/include/c++/9/bits/stl_vector.h: In member function 'bool BamTools::Fasta::FastaPrivate::CreateIndex(const string&)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: 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
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In member function 'bool BamTools::Fasta::FastaPrivate::LoadIndexData()':
/usr/include/c++/9/bits/stl_vector.h:1195:4: 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
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
[ 74%] Linking CXX static library libbamtools-utils.a
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /usr/bin/cmake -P CMakeFiles/BamTools-utils.dir/cmake_clean_target.cmake
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils && /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/bamtools_fasta.cpp.o CMakeFiles/BamTools-utils.dir/bamtools_options.cpp.o CMakeFiles/BamTools-utils.dir/bamtools_pileup_engine.cpp.o CMakeFiles/BamTools-utils.dir/bamtools_utilities.cpp.o
/usr/bin/ranlib libbamtools-utils.a
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
[ 74%] Built target BamTools-utils
make -f src/toolkit/CMakeFiles/bamtools_cmd.dir/build.make src/toolkit/CMakeFiles/bamtools_cmd.dir/depend
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/bamtools-2.5.1+dfsg /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake --color=
Scanning dependencies of target bamtools_cmd
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
make -f src/toolkit/CMakeFiles/bamtools_cmd.dir/build.make src/toolkit/CMakeFiles/bamtools_cmd.dir/build
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
[ 76%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_convert.cpp.o
[ 79%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_coverage.cpp.o
[ 79%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_count.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_convert.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_convert.cpp
[ 81%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_filter.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_count.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_count.cpp
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_coverage.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_coverage.cpp
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_filter.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_filter.cpp
[ 83%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_header.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_header.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_header.cpp
[ 84%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_index.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_index.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_index.cpp
[ 86%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_merge.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_merge.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_merge.cpp
[ 88%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_random.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_random.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_random.cpp
[ 89%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_resolve.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_resolve.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_resolve.cpp
[ 91%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_revert.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_revert.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_revert.cpp
[ 93%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_sort.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_sort.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_sort.cpp
[ 94%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_split.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_split.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_split.cpp
[ 96%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools_stats.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools_stats.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools_stats.cpp
[ 98%] Building CXX object src/toolkit/CMakeFiles/bamtools_cmd.dir/bamtools.cpp.o
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit -I/<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/third_party/jsoncpp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -o CMakeFiles/bamtools_cmd.dir/bamtools.cpp.o -c /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit/bamtools.cpp
[100%] Linking CXX executable bamtools
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit && /usr/bin/cmake -E cmake_link_script CMakeFiles/bamtools_cmd.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/bamtools-2.5.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bamtools_cmd.dir/bamtools_convert.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_count.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_coverage.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_filter.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_header.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_index.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_merge.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_random.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_resolve.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_revert.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_sort.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_split.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools_stats.cpp.o CMakeFiles/bamtools_cmd.dir/bamtools.cpp.o -o bamtools -Wl,-rpath,/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api: ../utils/libbamtools-utils.a -ljsoncpp ../api/libbamtools.so.2.5.1
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
[100%] Built target bamtools_cmd
make[2]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
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cd obj-* && ln -s src/toolkit/ bin
dh_auto_test --arch
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make[2]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
Running tests...
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make[1]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
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cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/bamtools-2.5.1+dfsg /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/api /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/api/CMakeFiles/BamTools.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
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make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
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make -f src/utils/CMakeFiles/BamTools-utils.dir/build.make src/utils/CMakeFiles/BamTools-utils.dir/depend
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cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/bamtools-2.5.1+dfsg /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/utils /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/utils/CMakeFiles/BamTools-utils.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
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make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
[ 74%] Built target BamTools-utils
make -f src/toolkit/CMakeFiles/bamtools_cmd.dir/build.make src/toolkit/CMakeFiles/bamtools_cmd.dir/depend
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/bamtools-2.5.1+dfsg /<<BUILDDIR>>/bamtools-2.5.1+dfsg/src/toolkit /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/src/toolkit/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
make -f src/toolkit/CMakeFiles/bamtools_cmd.dir/build.make src/toolkit/CMakeFiles/bamtools_cmd.dir/build
make[3]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
make[3]: Nothing to be done for 'src/toolkit/CMakeFiles/bamtools_cmd.dir/build'.
make[3]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
[100%] Built target bamtools_cmd
make[2]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
/usr/bin/cmake -E cmake_progress_start /<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf/CMakeFiles 0
make -f CMakeFiles/Makefile2 preinstall
make[2]: Entering directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
make[2]: Nothing to be done for 'preinstall'.
make[2]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
Install the project...
/usr/bin/cmake -P cmake_install.cmake
-- Install configuration: "None"
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/shared/bamtools_global.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig/bamtools-1.pc
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.1
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/lib/arm-linux-gnueabihf/libbamtools.so
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/api_global.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamAlgorithms.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamAlignment.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamAux.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamConstants.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamIndex.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamMultiReader.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamReader.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/BamWriter.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/IBamIODevice.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamConstants.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamHeader.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamProgram.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamProgramChain.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamReadGroup.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamReadGroupDictionary.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamSequence.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/SamSequenceDictionary.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/include/bamtools/api/algorithms/Sort.h
-- Installing: /<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/bin/bamtools
-- Set runtime path of "/<<BUILDDIR>>/bamtools-2.5.1+dfsg/debian/tmp/usr/bin/bamtools" to ""
make[1]: Leaving directory '/<<BUILDDIR>>/bamtools-2.5.1+dfsg/obj-arm-linux-gnueabihf'
dh_install -a
dh_installdocs -a
dh_installchangelogs -a
dh_installman -a
dh_lintian -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_missing -a
dh_missing: usr/lib/arm-linux-gnueabihf/pkgconfig/bamtools-1.pc exists in debian/tmp but is not installed to anywhere
The following debhelper tools have reported what they installed (with files per package)
* dh_install: bamtools (1), libbamtools-dev (3), libbamtools-doc (0), libbamtools2.5.1 (1)
* dh_installdocs: bamtools (4), libbamtools-dev (0), libbamtools-doc (0), libbamtools2.5.1 (0)
* dh_installman: bamtools (1), libbamtools-dev (0), libbamtools-doc (0), libbamtools2.5.1 (0)
If the missing files are installed by another tool, please file a bug against it.
When filing the report, if the tool is not part of debhelper itself, please reference the
"Logging helpers and dh_missing" section from the "PROGRAMMING" guide for debhelper (10.6.3+).
(in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.gz)
Be sure to test with dpkg-buildpackage -A/-B as the results may vary when only a subset is built
For a short-term work-around: Add the files to debian/not-installed
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libbamtools2.5.1/usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.1 found in none of the libraries
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: 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_2.5.1+dfsg-5_armhf.deb'.
dpkg-deb: building package 'libbamtools-dev' in '../libbamtools-dev_2.5.1+dfsg-5_armhf.deb'.
dpkg-deb: building package 'libbamtools2.5.1-dbgsym' in '../libbamtools2.5.1-dbgsym_2.5.1+dfsg-5_armhf.deb'.
dpkg-deb: building package 'libbamtools2.5.1' in '../libbamtools2.5.1_2.5.1+dfsg-5_armhf.deb'.
dpkg-deb: building package 'bamtools-dbgsym' in '../bamtools-dbgsym_2.5.1+dfsg-5_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../bamtools_2.5.1+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 2019-12-16T05:22:52Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
bamtools_2.5.1+dfsg-5_armhf.changes:
------------------------------------
Format: 1.8
Date: Tue, 10 Dec 2019 12:00:36 +0100
Source: bamtools
Binary: bamtools bamtools-dbgsym libbamtools-dev libbamtools2.5.1 libbamtools2.5.1-dbgsym
Architecture: armhf
Version: 2.5.1+dfsg-5
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
bamtools - toolkit for manipulating BAM (genome alignment) files
libbamtools-dev - C++ API for manipulating BAM (genome alignment) files
libbamtools2.5.1 - dynamic library for manipulating BAM (genome alignment) files
Closes: 933505
Changes:
bamtools (2.5.1+dfsg-5) unstable; urgency=medium
.
* Ignore one test that is known to fail on ppc64el architecture
Closes: #933505
* Set upstream metadata fields: Bug-Database, Repository, Repository-
Browse.
Checksums-Sha1:
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2745ab23ea82ede812efb1fb25e34fd6bbc8c0e6 139484 bamtools_2.5.1+dfsg-5_armhf.deb
45cdfb5a4b6bdf3c1e716e20e13caf5cf77fa6df 22116 libbamtools-dev_2.5.1+dfsg-5_armhf.deb
efc749964b249558d2bae399a749c03cecc95d79 2340720 libbamtools2.5.1-dbgsym_2.5.1+dfsg-5_armhf.deb
97537508b9115eb46ad7a0d23cc534f85d2bee2a 132016 libbamtools2.5.1_2.5.1+dfsg-5_armhf.deb
Checksums-Sha256:
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b6e584d276d479cd1c4639f3ba48f51f6f47cce6c7e585e235727e1be076cfaf 7471 bamtools_2.5.1+dfsg-5_armhf.buildinfo
c48ae315f170585dc7a4d2f39d488b16372ab2772782d50782cd3b8733b9e120 139484 bamtools_2.5.1+dfsg-5_armhf.deb
229805bf6f8e78e7f34d73251300fcad2576c011595c676bf357689c66c5ee15 22116 libbamtools-dev_2.5.1+dfsg-5_armhf.deb
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b84e686b0a5ba52e1db2e48b439de3eba3ffb5e059bfdae4bad7b86712d7a19d 132016 libbamtools2.5.1_2.5.1+dfsg-5_armhf.deb
Files:
dd1f0181d0a914266e59a2722fe9aef0 3153048 debug optional bamtools-dbgsym_2.5.1+dfsg-5_armhf.deb
1f77c705228a57df3d3ed18cf5aa9c49 7471 science optional bamtools_2.5.1+dfsg-5_armhf.buildinfo
9f90e17b44e278e2d4f3597f7f2e9c6a 139484 science optional bamtools_2.5.1+dfsg-5_armhf.deb
1e9de5dfc6329667d7e20f1ca4667e5e 22116 libdevel optional libbamtools-dev_2.5.1+dfsg-5_armhf.deb
4ae974bf21a8a39fd7e4aeb7eb189c79 2340720 debug optional libbamtools2.5.1-dbgsym_2.5.1+dfsg-5_armhf.deb
db21311502396a000764552a2cb661fc 132016 libs optional libbamtools2.5.1_2.5.1+dfsg-5_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
bamtools-dbgsym_2.5.1+dfsg-5_armhf.deb
--------------------------------------
new Debian package, version 2.0.
size 3153048 bytes: control archive=540 bytes.
385 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: bamtools-dbgsym
Source: bamtools
Version: 2.5.1+dfsg-5
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 3216
Depends: bamtools (= 2.5.1+dfsg-5)
Section: debug
Priority: optional
Description: debug symbols for bamtools
Build-Ids: 4bfa25f1608b3f51c71ea104f26e6a7d23703839
drwxr-xr-x root/root 0 2019-12-10 11:00 ./
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/debug/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/debug/.build-id/4b/
-rw-r--r-- root/root 3282472 2019-12-10 11:00 ./usr/lib/debug/.build-id/4b/fa25f1608b3f51c71ea104f26e6a7d23703839.debug
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/doc/
lrwxrwxrwx root/root 0 2019-12-10 11:00 ./usr/share/doc/bamtools-dbgsym -> bamtools
bamtools_2.5.1+dfsg-5_armhf.deb
-------------------------------
new Debian package, version 2.0.
size 139484 bytes: control archive=1512 bytes.
1805 bytes, 37 lines control
622 bytes, 9 lines md5sums
Package: bamtools
Version: 2.5.1+dfsg-5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 473
Depends: libbamtools2.5.1 (>= 2.5.1+dfsg), libc6 (>= 2.4), libgcc1 (>= 1:3.5), libjsoncpp1 (>= 1.7.4), libstdc++6 (>= 9)
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 2019-12-10 11:00 ./
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/bin/
-rwxr-xr-x root/root 460312 2019-12-10 11:00 ./usr/bin/bamtools
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/doc/bamtools/
-rw-r--r-- root/root 262 2019-12-10 11:00 ./usr/share/doc/bamtools/README.test
-rw-r--r-- root/root 2226 2019-12-10 11:00 ./usr/share/doc/bamtools/changelog.Debian.gz
-rw-r--r-- root/root 1665 2019-12-10 11:00 ./usr/share/doc/bamtools/copyright
-rw-r--r-- root/root 352 2019-12-10 11:00 ./usr/share/doc/bamtools/filter_script
-rw-r--r-- root/root 1302 2019-12-10 11:00 ./usr/share/doc/bamtools/run-unit-test
-rw-r--r-- root/root 375 2019-12-10 11:00 ./usr/share/doc/bamtools/sam_spec_example.bam
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/lintian/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/lintian/overrides/
-rw-r--r-- root/root 71 2019-12-10 11:00 ./usr/share/lintian/overrides/bamtools
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/man/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/man/man1/
-rw-r--r-- root/root 792 2019-12-10 11:00 ./usr/share/man/man1/bamtools.1.gz
libbamtools-dev_2.5.1+dfsg-5_armhf.deb
--------------------------------------
new Debian package, version 2.0.
size 22116 bytes: control archive=1504 bytes.
994 bytes, 25 lines control
1729 bytes, 23 lines md5sums
Package: libbamtools-dev
Source: bamtools
Version: 2.5.1+dfsg-5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 131
Depends: libbamtools2.5.1 (= 2.5.1+dfsg-5)
Suggests: libbamtools-doc (= 2.5.1+dfsg-5)
Breaks: libbamtools2.4.0 (<< 2.5.1+dfsg-2~)
Replaces: libbamtools2.4.0 (<< 2.5.1+dfsg-2~)
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 2019-12-10 11:00 ./
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/include/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/include/bamtools/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/include/bamtools/api/
-rw-r--r-- root/root 848 2017-12-23 18:10 ./usr/include/bamtools/api/BamAlgorithms.h
-rw-r--r-- root/root 22766 2019-12-10 11:00 ./usr/include/bamtools/api/BamAlignment.h
-rw-r--r-- root/root 14259 2017-12-23 18:10 ./usr/include/bamtools/api/BamAux.h
-rw-r--r-- root/root 9234 2017-12-23 18:10 ./usr/include/bamtools/api/BamConstants.h
-rw-r--r-- root/root 2754 2017-12-23 18:10 ./usr/include/bamtools/api/BamIndex.h
-rw-r--r-- root/root 4242 2017-12-23 18:10 ./usr/include/bamtools/api/BamMultiReader.h
-rw-r--r-- root/root 3780 2017-12-23 18:10 ./usr/include/bamtools/api/BamReader.h
-rw-r--r-- root/root 1950 2017-12-23 18:10 ./usr/include/bamtools/api/BamWriter.h
-rw-r--r-- root/root 2818 2017-12-23 18:10 ./usr/include/bamtools/api/IBamIODevice.h
-rw-r--r-- root/root 3491 2017-12-23 18:10 ./usr/include/bamtools/api/SamConstants.h
-rw-r--r-- root/root 2899 2017-12-23 18:10 ./usr/include/bamtools/api/SamHeader.h
-rw-r--r-- root/root 2332 2017-12-23 18:10 ./usr/include/bamtools/api/SamProgram.h
-rw-r--r-- root/root 2897 2017-12-23 18:10 ./usr/include/bamtools/api/SamProgramChain.h
-rw-r--r-- root/root 3266 2017-12-23 18:10 ./usr/include/bamtools/api/SamReadGroup.h
-rw-r--r-- root/root 3083 2017-12-23 18:10 ./usr/include/bamtools/api/SamReadGroupDictionary.h
-rw-r--r-- root/root 2570 2017-12-23 18:10 ./usr/include/bamtools/api/SamSequence.h
-rw-r--r-- root/root 3043 2017-12-23 18:10 ./usr/include/bamtools/api/SamSequenceDictionary.h
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/include/bamtools/api/algorithms/
-rw-r--r-- root/root 12242 2017-12-23 18:10 ./usr/include/bamtools/api/algorithms/Sort.h
-rw-r--r-- root/root 754 2017-12-23 18:10 ./usr/include/bamtools/api/api_global.h
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/include/bamtools/shared/
-rw-r--r-- root/root 2346 2017-12-23 18:10 ./usr/include/bamtools/shared/bamtools_global.h
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/arm-linux-gnueabihf/
lrwxrwxrwx root/root 0 2019-12-10 11:00 ./usr/lib/arm-linux-gnueabihf/libbamtools.so -> libbamtools.so.2.5.1
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/cmake/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/cmake/bamtools/
-rw-r--r-- root/root 1574 2019-12-10 11:00 ./usr/share/cmake/bamtools/bamtools-config.cmake
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/doc/libbamtools-dev/
-rw-r--r-- root/root 2226 2019-12-10 11:00 ./usr/share/doc/libbamtools-dev/changelog.Debian.gz
-rw-r--r-- root/root 1665 2019-12-10 11:00 ./usr/share/doc/libbamtools-dev/copyright
libbamtools2.5.1-dbgsym_2.5.1+dfsg-5_armhf.deb
----------------------------------------------
new Debian package, version 2.0.
size 2340720 bytes: control archive=556 bytes.
426 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libbamtools2.5.1-dbgsym
Source: bamtools
Version: 2.5.1+dfsg-5
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2414
Depends: libbamtools2.5.1 (= 2.5.1+dfsg-5)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libbamtools2.5.1
Build-Ids: 51f05d827330677a9a5f650c4fa21dee664c01e0
drwxr-xr-x root/root 0 2019-12-10 11:00 ./
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/debug/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/debug/.build-id/51/
-rw-r--r-- root/root 2461164 2019-12-10 11:00 ./usr/lib/debug/.build-id/51/f05d827330677a9a5f650c4fa21dee664c01e0.debug
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/doc/
lrwxrwxrwx root/root 0 2019-12-10 11:00 ./usr/share/doc/libbamtools2.5.1-dbgsym -> libbamtools2.5.1
libbamtools2.5.1_2.5.1+dfsg-5_armhf.deb
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new Debian package, version 2.0.
size 132016 bytes: control archive=1064 bytes.
901 bytes, 22 lines control
243 bytes, 3 lines md5sums
51 bytes, 1 lines shlibs
67 bytes, 2 lines triggers
Package: libbamtools2.5.1
Source: bamtools
Version: 2.5.1+dfsg-5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 437
Depends: libc6 (>= 2.15), libgcc1 (>= 1:3.5), libstdc++6 (>= 9), 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 2019-12-10 11:00 ./
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 431520 2019-12-10 11:00 ./usr/lib/arm-linux-gnueabihf/libbamtools.so.2.5.1
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-12-10 11:00 ./usr/share/doc/libbamtools2.5.1/
-rw-r--r-- root/root 2226 2019-12-10 11:00 ./usr/share/doc/libbamtools2.5.1/changelog.Debian.gz
-rw-r--r-- root/root 1665 2019-12-10 11:00 ./usr/share/doc/libbamtools2.5.1/copyright
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Build Architecture: armhf
Build-Space: 102064
Build-Time: 385
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 560
Job: bamtools_2.5.1+dfsg-5
Machine Architecture: armhf
Package: bamtools
Package-Time: 996
Source-Version: 2.5.1+dfsg-5
Space: 102064
Status: successful
Version: 2.5.1+dfsg-5
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Finished at 2019-12-16T05:22:52Z
Build needed 00:16:36, 102064k disc space