diamond-aligner →
0.9.29+dfsg-5 →
armhf → 2020-01-19 05:28:55
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01
+==============================================================================+
| diamond-aligner 0.9.29+dfsg-5 (armhf) Sun, 19 Jan 2020 05:22:50 +0000 |
+==============================================================================+
Package: diamond-aligner
Version: 0.9.29+dfsg-5
Source Version: 0.9.29+dfsg-5
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-11f01dae-b1f2-4cfb-abdc-250395c778f3' 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 10s (2333 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'diamond-aligner' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/diamond-aligner.git
Please use:
git clone https://salsa.debian.org/med-team/diamond-aligner.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 241 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main diamond-aligner 0.9.29+dfsg-5 (dsc) [2051 B]
Get:2 http://172.17.0.1/private bullseye-staging/main diamond-aligner 0.9.29+dfsg-5 (tar) [231 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main diamond-aligner 0.9.29+dfsg-5 (diff) [7692 B]
Fetched 241 kB in 0s (817 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/diamond-aligner-fyb0hr/diamond-aligner-0.9.29+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/diamond-aligner-fyb0hr' 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-Wx8uAG/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-Wx8uAG/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-Wx8uAG/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ Packages [432 B]
Fetched 2108 B in 0s (7552 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
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 1 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (0 B/s)
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(Reading database ... 12207 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), cmake, zlib1g-dev
Filtered Build-Depends: debhelper-compat (= 12), cmake, zlib1g-dev
dpkg-deb: building package 'sbuild-build-depends-diamond-aligner-dummy' in '/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive/sbuild-build-depends-diamond-aligner-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-diamond-aligner-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-Wx8uAG/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ Sources [508 B]
Get:5 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ Packages [589 B]
Fetched 2430 B in 0s (9047 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install diamond-aligner 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
debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext
gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13
libbrotli1 libbsd0 libcroco3 libcurl3-gnutls libdebhelper-perl libelf1
libexpat1 libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2
libicu63 libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps7
libpsl5 librhash0 librtmp1 libsigsegv2 libssh2-1 libssl1.1
libsub-override-perl libtinfo5 libtool libuchardet0 libuv1 libxml2 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 gettext-doc libasprintf-dev
libgettextpo-dev groff lrzip krb5-doc krb5-user libtool-doc gfortran
| fortran95-compiler gcj-jdk 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
debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext
gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13
libbrotli1 libbsd0 libcroco3 libcurl3-gnutls libdebhelper-perl libelf1
libexpat1 libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2
libicu63 libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps7
libpsl5 librhash0 librtmp1 libsigsegv2 libssh2-1 libssl1.1
libsub-override-perl libtinfo5 libtool libuchardet0 libuv1 libxml2 m4 man-db
po-debconf procps sbuild-build-depends-diamond-aligner-dummy sensible-utils
zlib1g-dev
0 upgraded, 59 newly installed, 0 to remove and 1 not upgraded.
Need to get 26.8 MB of archives.
After this operation, 99.8 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-Wx8uAG/apt_archive ./ sbuild-build-depends-diamond-aligner-dummy 0.invalid.0 [880 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.1+20191019-1 [316 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-4 [783 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.2-2 [29.6 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.0-2 [1261 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.1+20191019-1 [79.5 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libprocps7 armhf 2:3.3.15-2 [58.9 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf procps armhf 2:3.3.15-2 [235 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-3 [262 kB]
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Get:15 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-3 [66.8 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf cmake-data all 3.15.4-1+rpi1 [1580 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-2 [7974 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.4+dfsg1-8 [593 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libarchive13 armhf 3.4.0-1+b1 [292 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.7-6 [261 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6-6 [14.0 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.17-6+b1 [61.5 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.17-6+b1 [112 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1d-2 [1268 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.17-6+b1 [316 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.17-6+b1 [134 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf libnghttp2-14 armhf 1.40.0-1 [73.9 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf libpsl5 armhf 0.20.2-2 [52.6 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b1 [54.3 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf libssh2-1 armhf 1.8.0-2.1 [126 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf libcurl3-gnutls armhf 7.67.0-2 [284 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.9-1 [71.5 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libjsoncpp1 armhf 1.7.4-3 [66.2 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf librhash0 armhf 1.3.9-1 [133 kB]
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Get:43 http://172.17.0.1/private bullseye-staging/main armhf cmake armhf 3.15.4-1+rpi1 [2540 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-11 [547 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 12.7.3 [174 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.67-1 [104 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.6.3-1 [23.6 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.6.3-1 [14.6 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.62.4-1 [1138 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 12.7.3 [1019 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
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Setting up file (1:5.38-3) ...
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Setting up libkrb5support0:armhf (1.17-6+b1) ...
Setting up autotools-dev (20180224.1) ...
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 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 (1.3.9-1) ...
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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 libjsoncpp1:armhf (1.7.4-3) ...
Setting up libfile-stripnondeterminism-perl (1.6.3-1) ...
Setting up libtool (2.4.6-11) ...
Setting up libarchive13:armhf (3.4.0-1+b1) ...
Setting up m4 (1.4.18-4) ...
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) ...
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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 libcurl3-gnutls:armhf (7.67.0-2) ...
Setting up man-db (2.9.0-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up cmake (3.15.4-1+rpi1) ...
Setting up po-debconf (1.0.21) ...
Setting up dh-autoreconf (19) ...
Setting up debhelper (12.7.3) ...
Setting up sbuild-build-depends-diamond-aligner-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.29-7+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-58-generic armhf (armv8l)
Toolchain package versions: binutils_2.33.1-6+rpi1 dpkg-dev_1.19.7 g++-9_9.2.1-22+rpi1 gcc-9_9.2.1-22+rpi1 libc6-dev_2.29-7+rpi1 libstdc++-9-dev_9.2.1-22+rpi1 libstdc++6_9.2.1-22+rpi1 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_3.5.47 bash_5.0-5 binutils_2.33.1-6+rpi1 binutils-arm-linux-gnueabihf_2.33.1-6+rpi1 binutils-common_2.33.1-6+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_9.2.1-22+rpi1 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.7.3 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.6.3-1 diffutils_1:3.7-3 dirmngr_2.2.19-1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.5-2 fakeroot_1.24-1 fdisk_2.34-0.1 file_1:5.38-3 findutils_4.7.0-1 g++_4:9.2.1-3.1+rpi1 g++-9_9.2.1-22+rpi1 gcc_4:9.2.1-3.1+rpi1 gcc-9_9.2.1-22+rpi1 gcc-9-base_9.2.1-22+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.19-1 gnupg-l10n_2.2.19-1 gnupg-utils_2.2.19-1 gpg_2.2.19-1 gpg-agent_2.2.19-1 gpg-wks-client_2.2.19-1 gpg-wks-server_2.2.19-1 gpgconf_2.2.19-1 gpgsm_2.2.19-1 gpgv_2.2.19-1 grep_3.3-1 groff-base_1.22.4-4 gzip_1.9-3 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_9.2.1-22+rpi1 libassuan0_2.5.3-7 libatomic1_9.2.1-22+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2+b1 libbinutils_2.33.1-6+rpi1 libblkid1_2.34-0.1 libbrotli1_1.0.7-6 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.29-7+rpi1 libc-dev-bin_2.29-7+rpi1 libc6_2.29-7+rpi1 libc6-dev_2.29-7+rpi1 libcap-ng0_0.7.9-2.1 libcap2_1:2.27-1 libcap2-bin_1:2.27-1 libcc1-0_9.2.1-22+rpi1 libcom-err2_1.45.5-2 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.10-10+b5 libcrypt1_1:4.4.10-10+b5 libcurl3-gnutls_7.67.0-2 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.250 libdebhelper-perl_12.7.3 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.5-2 libfakeroot_1.24-1 libfdisk1_2.34-0.1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.6.3-1 libgcc-9-dev_9.2.1-22+rpi1 libgcc1_1:9.2.1-22+rpi1 libgcrypt20_1.8.5-3 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.62.4-1 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.11.1-2 libgomp1_9.2.1-22+rpi1 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 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 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-3 libmagic1_1:5.38-3 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_10.34-7 libpcre3_2:8.39-12 libperl5.30_5.30.0-9 libpipeline1_1.5.2-2 libprocps7_2:3.3.15-2 libpsl5_0.20.2-2 libreadline7_7.0-5 libreadline8_8.0-3 librhash0_1.3.9-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.2-2+rpi1 libselinux1_3.0-1 libsemanage-common_3.0-1 libsemanage1_3.0-1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1 libsqlite3-0_3.30.1+fossil191229-1 libss2_1.45.5-2 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1d-2 libstdc++-9-dev_9.2.1-22+rpi1 libstdc++6_9.2.1-22+rpi1 libsub-override-perl_0.09-2 libsystemd0_244-3+rpi1+b1 libtasn1-6_4.15.0-2 libtinfo5_6.1+20191019-1 libtinfo6_6.1+20191019-1 libtool_2.4.6-11 libubsan1_9.2.1-22+rpi1 libuchardet0_0.0.6-3 libudev1_244-3+rpi1+b1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libuv1_1.33.1-2 libxml2_2.9.4+dfsg1-8 libzstd1_1.4.4+dfsg-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.8-1 logsave_1.45.5-2 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-2 mawk_1.3.3-17 mount_2.34-0.1 ncurses-base_6.1+20191019-1 ncurses-bin_6.1+20191019-1 netbase_6.0 passwd_1:4.8-1 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-core-dummy_0.invalid.0 sbuild-build-depends-diamond-aligner-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 Tue Jan 14 08:09:14 2020 UTC
gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./diamond-aligner_0.9.29+dfsg-5.dsc
dpkg-source: info: extracting diamond-aligner in /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg
dpkg-source: info: unpacking diamond-aligner_0.9.29+dfsg.orig.tar.xz
dpkg-source: info: unpacking diamond-aligner_0.9.29+dfsg-5.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying avoid_unwanted_optimisation.patch
dpkg-source: info: applying 82feea2aee5c82e283704b9317cb5e8abc625f90.patch
dpkg-source: info: applying multi_arch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
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=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-11f01dae-b1f2-4cfb-abdc-250395c778f3
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package diamond-aligner
dpkg-buildpackage: info: source version 0.9.29+dfsg-5
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_clean
debian/rules build-arch
dh build-arch
dh_update_autotools_config -a
dh_autoreconf -a
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg'
dh_auto_configure -- -DX86=OFF
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 -DX86=OFF ..
-- The C compiler identification is GNU 9.2.1
-- The CXX compiler identification is GNU 9.2.1
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /usr/bin/c++
-- Check for working CXX compiler: /usr/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.11")
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE
-- Configuring done
-- Generating done
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_EXPORT_NO_PACKAGE_REGISTRY
CMAKE_INSTALL_LIBDIR
CMAKE_INSTALL_LOCALSTATEDIR
CMAKE_INSTALL_RUNSTATEDIR
CMAKE_INSTALL_SYSCONFDIR
-- Build files have been written to: /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf
make[1]: Leaving directory '/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg'
dh_auto_build -a
cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg -B/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf/CMakeFiles /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make[2]: Entering directory '/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf'
make -f CMakeFiles/arch_generic.dir/build.make CMakeFiles/arch_generic.dir/depend
make[3]: Entering directory '/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf/CMakeFiles/arch_generic.dir/DependInfo.cmake --color=
Scanning dependencies of target arch_generic
make[3]: Leaving directory '/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf'
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/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/dp/swipe/swipe_wrapper.cpp: In function ‘std::__cxx11::list<Hsp> DP::BandedSwipe::ARCH_GENERIC::swipe(const sequence&, std::vector<DpTarget>::iterator, std::vector<DpTarget>::iterator, Frame, const Bias_correction&, int)’:
/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/dp/swipe/swipe_wrapper.cpp:64:1: warning: no return statement in function returning non-void [-Wreturn-type]
64 | }
| ^
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/usr/bin/cc -I/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fuse-ld=gold -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/diamond.dir/src/blast/sm_pam250.c.o -c /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/blast/sm_pam250.c
[ 24%] Building CXX object CMakeFiles/diamond.dir/src/data/queries.cpp.o
/usr/bin/c++ -I/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fuse-ld=gold -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wall -Wno-uninitialized -Wno-ignored-attributes -Wno-unused-variable -std=gnu++11 -o CMakeFiles/diamond.dir/src/data/queries.cpp.o -c /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/data/queries.cpp
[ 25%] Building CXX object CMakeFiles/diamond.dir/src/data/reference.cpp.o
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[ 26%] Building CXX object CMakeFiles/diamond.dir/src/data/seed_histogram.cpp.o
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[ 27%] Building CXX object CMakeFiles/diamond.dir/src/output/daa_record.cpp.o
/usr/bin/c++ -I/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fuse-ld=gold -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wall -Wno-uninitialized -Wno-ignored-attributes -Wno-unused-variable -std=gnu++11 -o CMakeFiles/diamond.dir/src/output/daa_record.cpp.o -c /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/output/daa_record.cpp
[ 28%] Building CXX object CMakeFiles/diamond.dir/src/util/command_line_parser.cpp.o
/usr/bin/c++ -I/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fuse-ld=gold -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wall -Wno-uninitialized -Wno-ignored-attributes -Wno-unused-variable -std=gnu++11 -o CMakeFiles/diamond.dir/src/util/command_line_parser.cpp.o -c /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/util/command_line_parser.cpp
In file included from /usr/include/c++/9/vector:72,
from /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/data/../basic/config.h:23,
from /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/data/reference.cpp:24:
/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 unsigned int&, unsigned int}; _Tp = Pos_record; _Alloc = std::allocator<Pos_record>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<Pos_record>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<Pos_record*, std::vector<Pos_record> >’} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In function ‘void push_seq(const sequence&, const sequence&, uint64_t&, std::vector<Pos_record>&, OutputFile&, size_t&, size_t&)’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<Pos_record*, std::vector<Pos_record> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/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 unsigned int&, int}; _Tp = Pos_record; _Alloc = std::allocator<Pos_record>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<Pos_record>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<Pos_record*, std::vector<Pos_record> >’} 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 = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
/usr/include/c++/9/bits/vector.tcc: In member function ‘bool DatabaseFile::load_seqs(std::vector<unsigned int>&, size_t, Sequence_set**, String_set<'\000'>**, bool, const std::vector<bool>*)’:
/usr/include/c++/9/bits/vector.tcc:121:4: 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
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
[ 29%] Building CXX object CMakeFiles/diamond.dir/src/util/seq_file_format.cpp.o
/usr/bin/c++ -I/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fuse-ld=gold -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wall -Wno-uninitialized -Wno-ignored-attributes -Wno-unused-variable -std=gnu++11 -o CMakeFiles/diamond.dir/src/util/seq_file_format.cpp.o -c /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/util/seq_file_format.cpp
/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/data/reference.cpp:340:1: note: parameter passing for argument of type ‘std::vector<long long unsigned int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >’} changed in GCC 7.1
340 | }
| ^
In file included from /usr/include/c++/9/vector:72,
from /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/data/../basic/config.h:23,
from /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/src/data/reference.cpp:24:
/usr/include/c++/9/bits/vector.tcc: In function ‘void make_db(TempFile**)’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<Pos_record*, std::vector<Pos_record> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
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257 | }
| ^
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50 | target_parallel = (end - begin > config.query_parallel_limit) && config.frame_shift != 0 && align_mode.mode == Align_mode::blastx && config.toppercent < 100 && config.query_range_culling;
| ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<double>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<double*, std::vector<double> >’} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
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/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<double*, std::vector<double> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
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/usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fuse-ld=gold -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wall -Wno-uninitialized -Wno-ignored-attributes -Wno-unused-variable -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/diamond.dir/src/run/main.cpp.o CMakeFiles/diamond.dir/src/basic/config.cpp.o CMakeFiles/diamond.dir/src/basic/score_matrix.cpp.o CMakeFiles/diamond.dir/src/blast/blast_filter.cpp.o CMakeFiles/diamond.dir/src/blast/blast_seg.cpp.o CMakeFiles/diamond.dir/src/blast/sm_blosum45.c.o CMakeFiles/diamond.dir/src/blast/sm_blosum50.c.o CMakeFiles/diamond.dir/src/blast/sm_blosum62.c.o CMakeFiles/diamond.dir/src/blast/sm_blosum80.c.o CMakeFiles/diamond.dir/src/blast/sm_blosum90.c.o CMakeFiles/diamond.dir/src/blast/sm_pam30.c.o CMakeFiles/diamond.dir/src/blast/sm_pam70.c.o CMakeFiles/diamond.dir/src/blast/sm_pam250.c.o CMakeFiles/diamond.dir/src/data/queries.cpp.o CMakeFiles/diamond.dir/src/data/reference.cpp.o CMakeFiles/diamond.dir/src/data/seed_histogram.cpp.o CMakeFiles/diamond.dir/src/output/daa_record.cpp.o CMakeFiles/diamond.dir/src/util/command_line_parser.cpp.o CMakeFiles/diamond.dir/src/util/seq_file_format.cpp.o CMakeFiles/diamond.dir/src/util/util.cpp.o CMakeFiles/diamond.dir/src/util/Timer.cpp.o CMakeFiles/diamond.dir/src/basic/basic.cpp.o CMakeFiles/diamond.dir/src/basic/hssp.cpp.o CMakeFiles/diamond.dir/src/dp/ungapped_align.cpp.o CMakeFiles/diamond.dir/src/run/tools.cpp.o CMakeFiles/diamond.dir/src/dp/greedy_align.cpp.o CMakeFiles/diamond.dir/src/output/output_format.cpp.o CMakeFiles/diamond.dir/src/output/join_blocks.cpp.o CMakeFiles/diamond.dir/src/data/frequent_seeds.cpp.o CMakeFiles/diamond.dir/src/align/query_mapper.cpp.o CMakeFiles/diamond.dir/src/output/blast_tab_format.cpp.o CMakeFiles/diamond.dir/src/dp/padded_banded_sw.cpp.o CMakeFiles/diamond.dir/src/dp/needleman_wunsch.cpp.o CMakeFiles/diamond.dir/src/output/blast_pairwise_format.cpp.o CMakeFiles/diamond.dir/src/dp/comp_based_stats.cpp.o CMakeFiles/diamond.dir/src/run/double_indexed.cpp.o CMakeFiles/diamond.dir/src/output/sam_format.cpp.o CMakeFiles/diamond.dir/src/align/align.cpp.o CMakeFiles/diamond.dir/src/search/setup.cpp.o CMakeFiles/diamond.dir/src/dp/diag_scores.cpp.o CMakeFiles/diamond.dir/src/data/taxonomy.cpp.o CMakeFiles/diamond.dir/src/lib/tantan/tantan.cc.o CMakeFiles/diamond.dir/src/basic/masking.cpp.o CMakeFiles/diamond.dir/src/dp/banded_sw.cpp.o CMakeFiles/diamond.dir/src/data/seed_set.cpp.o CMakeFiles/diamond.dir/src/util/simd.cpp.o CMakeFiles/diamond.dir/src/output/taxon_format.cpp.o CMakeFiles/diamond.dir/src/output/view.cpp.o CMakeFiles/diamond.dir/src/output/output_sink.cpp.o CMakeFiles/diamond.dir/src/output/target_culling.cpp.o CMakeFiles/diamond.dir/src/align/greedy_pipeline.cpp.o CMakeFiles/diamond.dir/src/align/swipe_pipeline.cpp.o CMakeFiles/diamond.dir/src/align/banded_swipe_pipeline.cpp.o CMakeFiles/diamond.dir/src/data/ref_dictionary.cpp.o CMakeFiles/diamond.dir/src/util/io/compressed_stream.cpp.o CMakeFiles/diamond.dir/src/util/io/deserializer.cpp.o CMakeFiles/diamond.dir/src/util/io/file_sink.cpp.o CMakeFiles/diamond.dir/src/util/io/file_source.cpp.o CMakeFiles/diamond.dir/src/util/io/input_file.cpp.o CMakeFiles/diamond.dir/src/util/io/input_stream_buffer.cpp.o CMakeFiles/diamond.dir/src/util/io/output_file.cpp.o CMakeFiles/diamond.dir/src/util/io/output_stream_buffer.cpp.o CMakeFiles/diamond.dir/src/util/io/serializer.cpp.o CMakeFiles/diamond.dir/src/util/io/temp_file.cpp.o CMakeFiles/diamond.dir/src/util/io/text_input_file.cpp.o CMakeFiles/diamond.dir/src/data/taxon_list.cpp.o CMakeFiles/diamond.dir/src/data/taxonomy_nodes.cpp.o CMakeFiles/diamond.dir/src/util/algo/MurmurHash3.cpp.o CMakeFiles/diamond.dir/src/search/stage0.cpp.o CMakeFiles/diamond.dir/src/data/seed_array.cpp.o CMakeFiles/diamond.dir/src/output/paf_format.cpp.o CMakeFiles/diamond.dir/src/util/system/system.cpp.o CMakeFiles/diamond.dir/src/run/cluster.cpp.o CMakeFiles/diamond.dir/src/util/algo/greedy_vortex_cover.cpp.o CMakeFiles/diamond.dir/src/util/algo/greedy_vortex_cover_weighted.cpp.o CMakeFiles/diamond.dir/src/util/sequence/sequence.cpp.o CMakeFiles/diamond.dir/src/tools/tsv_record.cpp.o CMakeFiles/diamond.dir/src/tools/tools.cpp.o CMakeFiles/diamond.dir/src/util/system/getRSS.cpp.o CMakeFiles/diamond.dir/src/util/math/sparse_matrix.cpp.o CMakeFiles/diamond.dir/src/lib/tantan/LambdaCalculator.cc.o CMakeFiles/diamond.dir/src/data/taxonomy_filter.cpp.o CMakeFiles/arch_generic.dir/src/dp/swipe/banded_3frame_swipe.cpp.o CMakeFiles/arch_generic.dir/src/dp/swipe/swipe.cpp.o CMakeFiles/arch_generic.dir/src/dp/swipe/banded_swipe.cpp.o CMakeFiles/arch_generic.dir/src/search/collision.cpp.o CMakeFiles/arch_generic.dir/src/search/stage1.cpp.o CMakeFiles/arch_generic.dir/src/search/stage2.cpp.o CMakeFiles/arch_generic.dir/src/tools/benchmark.cpp.o CMakeFiles/arch_generic.dir/src/dp/swipe/swipe_wrapper.cpp.o -o diamond -lz -lpthread
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dh_auto_test -a
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dh binary-arch
dh_testroot -a
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cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/<<BUILDDIR>>/diamond-aligner-0.9.29\+dfsg/debian/diamond-aligner AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg -B/<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf/CMakeFiles /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks
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cd /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf/CMakeFiles/arch_generic.dir/DependInfo.cmake --color=
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cd /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/obj-arm-linux-gnueabihf/CMakeFiles/diamond.dir/DependInfo.cmake --color=
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-- Install configuration: "None"
-- Installing: /<<BUILDDIR>>/diamond-aligner-0.9.29+dfsg/debian/diamond-aligner/usr/bin/diamond
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dh_installdeb -a
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dpkg-deb: building package 'diamond-aligner' in '../diamond-aligner_0.9.29+dfsg-5_armhf.deb'.
dpkg-deb: building package 'diamond-aligner-dbgsym' in '../diamond-aligner-dbgsym_0.9.29+dfsg-5_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../diamond-aligner_0.9.29+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 2020-01-19T05:28:52Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
diamond-aligner_0.9.29+dfsg-5_armhf.changes:
--------------------------------------------
Format: 1.8
Date: Tue, 14 Jan 2020 08:54:46 +0100
Source: diamond-aligner
Binary: diamond-aligner diamond-aligner-dbgsym
Architecture: armhf
Version: 0.9.29+dfsg-5
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Michael R. Crusoe <michael.crusoe@gmail.com>
Description:
diamond-aligner - accelerated BLAST compatible local sequence aligner
Changes:
diamond-aligner (0.9.29+dfsg-5) unstable; urgency=medium
.
* Team upload.
* Restrict the use of the gold linker on architectures where it is not
available.
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Files:
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4a45338728db63bbf196e73a40723f02 5717 science optional diamond-aligner_0.9.29+dfsg-5_armhf.buildinfo
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+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
diamond-aligner-dbgsym_0.9.29+dfsg-5_armhf.deb
----------------------------------------------
new Debian package, version 2.0.
size 6607876 bytes: control archive=548 bytes.
415 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: diamond-aligner-dbgsym
Source: diamond-aligner
Version: 0.9.29+dfsg-5
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 6651
Depends: diamond-aligner (= 0.9.29+dfsg-5)
Section: debug
Priority: optional
Description: debug symbols for diamond-aligner
Build-Ids: 190155cdabfce46b63c0b926d8aa3f9e689f4a91
drwxr-xr-x root/root 0 2020-01-14 07:54 ./
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/lib/
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/lib/debug/.build-id/19/
-rw-r--r-- root/root 6799760 2020-01-14 07:54 ./usr/lib/debug/.build-id/19/0155cdabfce46b63c0b926d8aa3f9e689f4a91.debug
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/share/
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-01-14 07:54 ./usr/share/doc/diamond-aligner-dbgsym -> diamond-aligner
diamond-aligner_0.9.29+dfsg-5_armhf.deb
---------------------------------------
new Debian package, version 2.0.
size 400740 bytes: control archive=928 bytes.
816 bytes, 18 lines control
351 bytes, 5 lines md5sums
Package: diamond-aligner
Version: 0.9.29+dfsg-5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1074
Depends: libc6 (>= 2.29), libgcc1 (>= 1:3.5), libstdc++6 (>= 6), zlib1g (>= 1:1.1.4)
Recommends: med-config (>= 2.1)
Breaks: diamond
Replaces: diamond
Section: science
Priority: optional
Homepage: https://github.com/bbuchfink/diamond
Description: accelerated BLAST compatible local sequence aligner
DIAMOND is a sequence aligner for protein and translated DNA searches
and functions as a drop-in replacement for the NCBI BLAST software
tools. It is suitable for protein-protein search as well as DNA-protein
search on short reads and longer sequences including contigs and
assemblies, providing a speedup of BLAST ranging up to x20,000.
drwxr-xr-x root/root 0 2020-01-14 07:54 ./
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/bin/
-rwxr-xr-x root/root 1078576 2020-01-14 07:54 ./usr/bin/diamond
lrwxrwxrwx root/root 0 2020-01-14 07:54 ./usr/bin/diamond-aligner -> diamond
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/share/
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/share/doc/diamond-aligner/
-rw-r--r-- root/root 1989 2019-11-19 20:16 ./usr/share/doc/diamond-aligner/README.md.gz
-rw-r--r-- root/root 1183 2020-01-14 07:54 ./usr/share/doc/diamond-aligner/changelog.Debian.gz
-rw-r--r-- root/root 1413 2020-01-13 14:46 ./usr/share/doc/diamond-aligner/copyright
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/share/man/
drwxr-xr-x root/root 0 2020-01-14 07:54 ./usr/share/man/man1/
lrwxrwxrwx root/root 0 2020-01-14 07:54 ./usr/share/man/man1/diamond-aligner.1.gz -> diamond.1.gz
-rw-r--r-- root/root 2421 2020-01-14 07:54 ./usr/share/man/man1/diamond.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 96248
Build-Time: 135
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 209
Job: diamond-aligner_0.9.29+dfsg-5
Machine Architecture: armhf
Package: diamond-aligner
Package-Time: 362
Source-Version: 0.9.29+dfsg-5
Space: 96248
Status: successful
Version: 0.9.29+dfsg-5
--------------------------------------------------------------------------------
Finished at 2020-01-19T05:28:52Z
Build needed 00:06:02, 96248k disk space