spoa →
4.0.7+ds-2 →
armhf → 2021-10-17 09:22:43
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-04
+==============================================================================+
| spoa 4.0.7+ds-2 (armhf) Sun, 17 Oct 2021 09:04:33 +0000 |
+==============================================================================+
Package: spoa
Version: 4.0.7+ds-2
Source Version: 4.0.7+ds-2
Distribution: bookworm-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bookworm-staging-armhf-sbuild-31ba435c-f247-4ad8-bb50-86e3e6a15442' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bookworm-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bookworm-staging/main Sources [12.4 MB]
Get:3 http://172.17.0.1/private bookworm-staging/main armhf Packages [13.4 MB]
Fetched 25.9 MB in 26s (1008 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: 'spoa' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/spoa.git
Please use:
git clone https://salsa.debian.org/med-team/spoa.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 325 kB of source archives.
Get:1 http://172.17.0.1/private bookworm-staging/main spoa 4.0.7+ds-2 (dsc) [2160 B]
Get:2 http://172.17.0.1/private bookworm-staging/main spoa 4.0.7+ds-2 (tar) [314 kB]
Get:3 http://172.17.0.1/private bookworm-staging/main spoa 4.0.7+ds-2 (diff) [8320 B]
Fetched 325 kB in 0s (2048 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/spoa-OYLAVj/spoa-4.0.7+ds' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/spoa-OYLAVj' 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-H43blJ/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-H43blJ/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-H43blJ/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-H43blJ/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-H43blJ/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-H43blJ/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-H43blJ/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-H43blJ/apt_archive ./ Packages [432 B]
Fetched 2108 B in 1s (2722 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 package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 35 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-H43blJ/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 (22.5 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12484 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 (= 13), cmake, d-shlibs, libbioparser-dev (>= 3.0), libcereal-dev, libgtest-dev, zlib1g-dev, libsimde-dev
Filtered Build-Depends: debhelper-compat (= 13), cmake, d-shlibs, libbioparser-dev (>= 3.0), libcereal-dev, libgtest-dev, zlib1g-dev, libsimde-dev
dpkg-deb: building package 'sbuild-build-depends-spoa-dummy' in '/<<BUILDDIR>>/resolver-H43blJ/apt_archive/sbuild-build-depends-spoa-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-spoa-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-H43blJ/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-H43blJ/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-H43blJ/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-H43blJ/apt_archive ./ Sources [569 B]
Get:5 copy:/<<BUILDDIR>>/resolver-H43blJ/apt_archive ./ Packages [623 B]
Fetched 2525 B in 1s (3442 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install spoa build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils cmake cmake-data
d-shlibs debhelper dh-autoreconf dh-elpa-helper dh-strip-nondeterminism dwz
emacsen-common file gettext gettext-base googletest groff-base
intltool-debian libarchive-zip-perl libarchive13 libbioparser-dev libbrotli1
libcereal-dev libcurl4 libdebhelper-perl libelf1 libexpat1
libfile-stripnondeterminism-perl libgtest-dev libicu67 libjsoncpp24
libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps8
libpsl5 librhash0 librtmp1 libsigsegv2 libsimde-dev libssh2-1
libsub-override-perl libtool libuchardet0 libuv1 libxml2 m4 man-db
po-debconf procps rapidjson-dev sensible-utils zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc cmake-doc ninja-build dh-make
gettext-doc libasprintf-dev libgettextpo-dev groff lrzip libtool-doc
gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser
libmail-box-perl rapidjson-doc
Recommended packages:
curl | wget | lynx ca-certificates libarchive-cpio-perl libgpm2 publicsuffix
libltdl-dev libmail-sendmail-perl psmisc
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils cmake cmake-data
d-shlibs debhelper dh-autoreconf dh-elpa-helper dh-strip-nondeterminism dwz
emacsen-common file gettext gettext-base googletest groff-base
intltool-debian libarchive-zip-perl libarchive13 libbioparser-dev libbrotli1
libcereal-dev libcurl4 libdebhelper-perl libelf1 libexpat1
libfile-stripnondeterminism-perl libgtest-dev libicu67 libjsoncpp24
libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps8
libpsl5 librhash0 librtmp1 libsigsegv2 libsimde-dev libssh2-1
libsub-override-perl libtool libuchardet0 libuv1 libxml2 m4 man-db
po-debconf procps rapidjson-dev sbuild-build-depends-spoa-dummy
sensible-utils zlib1g-dev
0 upgraded, 58 newly installed, 0 to remove and 35 not upgraded.
Need to get 27.8 MB of archives.
After this operation, 120 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-H43blJ/apt_archive ./ sbuild-build-depends-spoa-dummy 0.invalid.0 [916 B]
Get:2 http://172.17.0.1/private bookworm-staging/main armhf bsdextrautils armhf 2.37.2-3 [135 kB]
Get:3 http://172.17.0.1/private bookworm-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:4 http://172.17.0.1/private bookworm-staging/main armhf groff-base armhf 1.22.4-7 [793 kB]
Get:5 http://172.17.0.1/private bookworm-staging/main armhf libpipeline1 armhf 1.5.3-1 [29.9 kB]
Get:6 http://172.17.0.1/private bookworm-staging/main armhf man-db armhf 2.9.4-2 [1307 kB]
Get:7 http://172.17.0.1/private bookworm-staging/main armhf libncurses6 armhf 6.2+20201114-4 [79.7 kB]
Get:8 http://172.17.0.1/private bookworm-staging/main armhf libprocps8 armhf 2:3.3.17-5 [60.5 kB]
Get:9 http://172.17.0.1/private bookworm-staging/main armhf procps armhf 2:3.3.17-5 [475 kB]
Get:10 http://172.17.0.1/private bookworm-staging/main armhf sensible-utils all 0.0.17 [21.5 kB]
Get:11 http://172.17.0.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB]
Get:12 http://172.17.0.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.39-3 [117 kB]
Get:13 http://172.17.0.1/private bookworm-staging/main armhf file armhf 1:5.39-3 [68.0 kB]
Get:14 http://172.17.0.1/private bookworm-staging/main armhf gettext-base armhf 0.21-4 [171 kB]
Get:15 http://172.17.0.1/private bookworm-staging/main armhf libsigsegv2 armhf 2.13-1 [34.3 kB]
Get:16 http://172.17.0.1/private bookworm-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:17 http://172.17.0.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:18 http://172.17.0.1/private bookworm-staging/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get:19 http://172.17.0.1/private bookworm-staging/main armhf automake all 1:1.16.4-2 [819 kB]
Get:20 http://172.17.0.1/private bookworm-staging/main armhf autopoint all 0.21-4 [510 kB]
Get:21 http://172.17.0.1/private bookworm-staging/main armhf libicu67 armhf 67.1-7 [8291 kB]
Get:22 http://172.17.0.1/private bookworm-staging/main armhf libxml2 armhf 2.9.12+dfsg-5 [584 kB]
Get:23 http://172.17.0.1/private bookworm-staging/main armhf libarchive13 armhf 3.4.3-2 [294 kB]
Get:24 http://172.17.0.1/private bookworm-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:25 http://172.17.0.1/private bookworm-staging/main armhf libnghttp2-14 armhf 1.43.0-1 [65.3 kB]
Get:26 http://172.17.0.1/private bookworm-staging/main armhf libpsl5 armhf 0.21.0-1.2 [56.2 kB]
Get:27 http://172.17.0.1/private bookworm-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:28 http://172.17.0.1/private bookworm-staging/main armhf libssh2-1 armhf 1.10.0-2 [161 kB]
Get:29 http://172.17.0.1/private bookworm-staging/main armhf libcurl4 armhf 7.74.0-1.3 [305 kB]
Get:30 http://172.17.0.1/private bookworm-staging/main armhf libexpat1 armhf 2.4.1-2 [80.3 kB]
Get:31 http://172.17.0.1/private bookworm-staging/main armhf libjsoncpp24 armhf 1.9.4-5 [67.4 kB]
Get:32 http://172.17.0.1/private bookworm-staging/main armhf librhash0 armhf 1.4.2-1 [141 kB]
Get:33 http://172.17.0.1/private bookworm-staging/main armhf libuv1 armhf 1.42.0-1 [121 kB]
Get:34 http://172.17.0.1/private bookworm-staging/main armhf dh-elpa-helper all 2.0.9 [11.2 kB]
Get:35 http://172.17.0.1/private bookworm-staging/main armhf emacsen-common all 3.0.4 [19.3 kB]
Get:36 http://172.17.0.1/private bookworm-staging/main armhf cmake-data all 3.21.3-4 [1878 kB]
Get:37 http://172.17.0.1/private bookworm-staging/main armhf cmake armhf 3.21.3-4 [3468 kB]
Get:38 http://172.17.0.1/private bookworm-staging/main armhf d-shlibs all 0.100 [18.1 kB]
Get:39 http://172.17.0.1/private bookworm-staging/main armhf libdebhelper-perl all 13.5.2 [192 kB]
Get:40 http://172.17.0.1/private bookworm-staging/main armhf libtool all 2.4.6-15 [513 kB]
Get:41 http://172.17.0.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:42 http://172.17.0.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:43 http://172.17.0.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:44 http://172.17.0.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB]
Get:45 http://172.17.0.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.12.0-1 [15.4 kB]
Get:46 http://172.17.0.1/private bookworm-staging/main armhf libelf1 armhf 0.185-2 [168 kB]
Get:47 http://172.17.0.1/private bookworm-staging/main armhf dwz armhf 0.14-1 [83.0 kB]
Get:48 http://172.17.0.1/private bookworm-staging/main armhf gettext armhf 0.21-4 [1215 kB]
Get:49 http://172.17.0.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:50 http://172.17.0.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:51 http://172.17.0.1/private bookworm-staging/main armhf debhelper all 13.5.2 [1056 kB]
Get:52 http://172.17.0.1/private bookworm-staging/main armhf googletest all 1.11.0-2 [535 kB]
Get:53 http://172.17.0.1/private bookworm-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:54 http://172.17.0.1/private bookworm-staging/main armhf libbioparser-dev all 3.0.12-1 [7168 B]
Get:55 http://172.17.0.1/private bookworm-staging/main armhf rapidjson-dev all 1.1.0+dfsg2-7 [98.9 kB]
Get:56 http://172.17.0.1/private bookworm-staging/main armhf libcereal-dev all 1.3.0+dfsg-2 [210 kB]
Get:57 http://172.17.0.1/private bookworm-staging/main armhf libgtest-dev armhf 1.11.0-2 [1405 kB]
Get:58 http://172.17.0.1/private bookworm-staging/main armhf libsimde-dev all 0.7.2-5 [259 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Setting up libexpat1:armhf (2.4.1-2) ...
Setting up libpipeline1:armhf (1.5.3-1) ...
Setting up libsimde-dev (0.7.2-5) ...
Setting up libpsl5:armhf (0.21.0-1.2) ...
Setting up bsdextrautils (2.37.2-3) ...
update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode
Setting up libicu67:armhf (67.1-7) ...
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Setting up libbrotli1:armhf (1.0.9-2+b1) ...
Setting up libnghttp2-14:armhf (1.43.0-1) ...
Setting up libmagic1:armhf (1:5.39-3) ...
Setting up gettext-base (0.21-4) ...
Setting up file (1:5.39-3) ...
Setting up googletest (1.11.0-2) ...
Setting up rapidjson-dev (1.1.0+dfsg2-7) ...
Setting up autotools-dev (20180224.1+nmu1) ...
Setting up libuv1:armhf (1.42.0-1) ...
Setting up emacsen-common (3.0.4) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ...
Setting up dh-elpa-helper (2.0.9) ...
Setting up libncurses6:armhf (6.2+20201114-4) ...
Setting up libsigsegv2:armhf (2.13-1) ...
Setting up autopoint (0.21-4) ...
Setting up d-shlibs (0.100) ...
Setting up libjsoncpp24:armhf (1.9.4-5) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Setting up sensible-utils (0.0.17) ...
Setting up libbioparser-dev (3.0.12-1) ...
Setting up librhash0:armhf (1.4.2-1) ...
Setting up libuchardet0:armhf (0.0.7-1) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libssh2-1:armhf (1.10.0-2) ...
Setting up cmake-data (3.21.3-4) ...
Setting up libelf1:armhf (0.185-2) ...
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Setting up libprocps8:armhf (2:3.3.17-5) ...
Setting up libfile-stripnondeterminism-perl (1.12.0-1) ...
Setting up gettext (0.21-4) ...
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Setting up libtool (2.4.6-15) ...
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Setting up m4 (1.4.18-5) ...
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Setting up libcurl4:armhf (7.74.0-1.3) ...
Setting up automake (1:1.16.4-2) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up po-debconf (1.0.21+nmu1) ...
Setting up man-db (2.9.4-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up dh-autoreconf (20) ...
Setting up cmake (3.21.3-4) ...
Setting up debhelper (13.5.2) ...
Setting up sbuild-build-depends-spoa-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.32-4+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.4-armmp armhf (armv7l)
Toolchain package versions: binutils_2.37-5+rpi1 dpkg-dev_1.20.9+rpi1 g++-10_10.3.0-9+rpi1 gcc-10_10.3.0-9+rpi1 libc6-dev_2.32-4+rpi1 libstdc++-10-dev_10.3.0-9+rpi1 libstdc++6_11.2.0-4+rpi1 linux-libc-dev_5.10.46-4+rpi1
Package versions: adduser_3.118 apt_2.3.9 autoconf_2.71-2 automake_1:1.16.4-2 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_12+rpi1 base-passwd_3.5.51 bash_5.1-3 binutils_2.37-5+rpi1 binutils-arm-linux-gnueabihf_2.37-5+rpi1 binutils-common_2.37-5+rpi1 bsdextrautils_2.37.2-3 bsdutils_1:2.37.2-1 build-essential_12.9 bzip2_1.0.8-4 cmake_3.21.3-4 cmake-data_3.21.3-4 coreutils_8.32-4 cpp_4:10.2.1-1+rpi1 cpp-10_10.3.0-9+rpi1 d-shlibs_0.100 dash_0.5.11+git20210120+802ebd4-1 debconf_1.5.77 debhelper_13.5.2 debianutils_4.11.2 dh-autoreconf_20 dh-elpa-helper_2.0.9 dh-strip-nondeterminism_1.12.0-1 diffutils_1:3.7-5 dirmngr_2.2.27-2 dpkg_1.20.9+rpi1 dpkg-dev_1.20.9+rpi1 dwz_0.14-1 e2fsprogs_1.46.4-1 emacsen-common_3.0.4 fakeroot_1.25.3-1.1 file_1:5.39-3 findutils_4.8.0-1 g++_4:10.2.1-1+rpi1 g++-10_10.3.0-9+rpi1 gcc_4:10.2.1-1+rpi1 gcc-10_10.3.0-9+rpi1 gcc-10-base_10.3.0-9+rpi1 gcc-11-base_11.2.0-4+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gcc-9-base_9.4.0-2+rpi1 gettext_0.21-4 gettext-base_0.21-4 gnupg_2.2.27-2 gnupg-l10n_2.2.27-2 gnupg-utils_2.2.27-2 googletest_1.11.0-2 gpg_2.2.27-2 gpg-agent_2.2.27-2 gpg-wks-client_2.2.27-2 gpg-wks-server_2.2.27-2 gpgconf_2.2.27-2 gpgsm_2.2.27-2 gpgv_2.2.27-2 grep_3.7-1 groff-base_1.22.4-7 gzip_1.10-4 hostname_3.23 init-system-helpers_1.60 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libapt-pkg6.0_2.3.9 libarchive-zip-perl_1.68-1 libarchive13_3.4.3-2 libasan6_11.2.0-4+rpi1 libassuan0_2.5.5-1 libatomic1_11.2.0-4+rpi1 libattr1_1:2.5.1-1 libaudit-common_1:3.0.5-1 libaudit1_1:3.0.5-1 libbinutils_2.37-5+rpi1 libbioparser-dev_3.0.12-1 libblkid1_2.37.2-1 libbrotli1_1.0.9-2+b1 libbz2-1.0_1.0.8-4 libc-bin_2.32-4+rpi1 libc-dev-bin_2.32-4+rpi1 libc6_2.32-4+rpi1 libc6-dev_2.32-4+rpi1 libcap-ng0_0.7.9-2.2+b1 libcc1-0_11.2.0-4+rpi1 libcereal-dev_1.3.0+dfsg-2 libcom-err2_1.46.4-1 libcrypt-dev_1:4.4.25-2 libcrypt1_1:4.4.25-2 libctf-nobfd0_2.37-5+rpi1 libctf0_2.37-5+rpi1 libcurl4_7.74.0-1.3 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.260 libdebhelper-perl_13.5.2 libdpkg-perl_1.20.9+rpi1 libelf1_0.185-2 libexpat1_2.4.1-2 libext2fs2_1.46.4-1 libfakeroot_1.25.3-1.1 libffi7_3.3-6 libfile-stripnondeterminism-perl_1.12.0-1 libgcc-10-dev_10.3.0-9+rpi1 libgcc-s1_11.2.0-4+rpi1 libgcrypt20_1.9.4-3 libgdbm-compat4_1.21-1 libgdbm6_1.21-1 libgmp10_2:6.2.1+dfsg-2 libgnutls30_3.7.2-2 libgomp1_11.2.0-4+rpi1 libgpg-error0_1.42-3 libgssapi-krb5-2_1.18.3-7 libgtest-dev_1.11.0-2 libhogweed6_3.7.3-1 libicu67_67.1-7 libidn2-0_2.3.2-2 libisl23_0.23-1 libjsoncpp24_1.9.4-5 libk5crypto3_1.18.3-7 libkeyutils1_1.6.1-2 libkrb5-3_1.18.3-7 libkrb5support0_1.18.3-7 libksba8_1.6.0-2 libldap-2.4-2_2.4.59+dfsg-1 liblocale-gettext-perl_1.07-4+b1 liblz4-1_1.9.3-2 liblzma5_5.2.5-2 libmagic-mgc_1:5.39-3 libmagic1_1:5.39-3 libmount1_2.37.2-1 libmpc3_1.2.0-1 libmpfr6_4.1.0-3 libncurses6_6.2+20201114-4 libncursesw6_6.2+20201114-4 libnettle8_3.7.3-1 libnghttp2-14_1.43.0-1 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.24.0-2 libpam-modules_1.4.0-10 libpam-modules-bin_1.4.0-10 libpam-runtime_1.4.0-10 libpam0g_1.4.0-10 libpcre2-8-0_10.36-2 libpcre3_2:8.39-13 libperl5.32_5.32.1-5 libpipeline1_1.5.3-1 libprocps8_2:3.3.17-5 libpsl5_0.21.0-1.2 libreadline8_8.1-2 librhash0_1.4.2-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.27+dfsg-2.1 libsasl2-modules-db_2.1.27+dfsg-2.1 libseccomp2_2.5.1-1+rpi1 libselinux1_3.1-3 libsemanage-common_3.1-1 libsemanage1_3.1-1+b1 libsepol1_3.1-1 libsigsegv2_2.13-1 libsimde-dev_0.7.2-5 libsmartcols1_2.37.2-1 libsqlite3-0_3.36.0-2 libss2_1.46.4-1 libssh2-1_1.10.0-2 libssl1.1_1.1.1l-1 libstdc++-10-dev_10.3.0-9+rpi1 libstdc++6_11.2.0-4+rpi1 libsub-override-perl_0.09-2 libsystemd0_247.9-1+rpi1 libtasn1-6_4.17.0-2 libtext-charwidth-perl_0.04-10+b1 libtext-iconv-perl_1.7-7+b1 libtinfo6_6.2+20201114-4 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.6-15 libubsan1_11.2.0-4+rpi1 libuchardet0_0.0.7-1 libudev1_247.9-1+rpi1 libunistring2_0.9.10-6 libuuid1_2.37.2-1 libuv1_1.42.0-1 libxml2_2.9.12+dfsg-5 libxxhash0_0.8.0-2+rpi1 libzstd1_1.4.8+dfsg-2.1+rpi1 linux-libc-dev_5.10.46-4+rpi1 login_1:4.8.1-1 logsave_1.46.4-1 lsb-base_11.1.0+rpi1 m4_1.4.18-5 make_4.3-4.1 man-db_2.9.4-2 mawk_1.3.4.20200120-2 mount_2.37.2-1 ncurses-base_6.2+20201114-4 ncurses-bin_6.2+20201114-4 netbase_6.3 passwd_1:4.8.1-1 patch_2.7.6-7 perl_5.32.1-5 perl-base_5.32.1-5 perl-modules-5.32_5.32.1-5 pinentry-curses_1.1.0-4 po-debconf_1.0.21+nmu1 procps_2:3.3.17-5 rapidjson-dev_1.1.0+dfsg2-7 raspbian-archive-keyring_20120528.2 readline-common_8.1-2 rpcsvc-proto_1.4.2-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-spoa-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sysvinit-utils_3.00-1 tar_1.34+dfsg-1 tzdata_2021a-1 util-linux_2.37.2-1 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.Rd9iWSJV/trustedkeys.kbx': General error
gpgv: Signature made Fri Oct 15 11:47:25 2021 UTC
gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./spoa_4.0.7+ds-2.dsc
dpkg-source: info: extracting spoa in /<<BUILDDIR>>/spoa-4.0.7+ds
dpkg-source: info: unpacking spoa_4.0.7+ds.orig.tar.xz
dpkg-source: info: unpacking spoa_4.0.7+ds-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying deb_cpu_features
dpkg-source: info: applying fix-ftbfs-gcc-10.patch
dpkg-source: info: applying use_debian_packaged_libs.patch
dpkg-source: info: applying shared_and_static.patch
Check disc 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=bookworm-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bookworm-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bookworm-staging-armhf-sbuild-31ba435c-f247-4ad8-bb50-86e3e6a15442
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package spoa
dpkg-buildpackage: info: source version 4.0.7+ds-2
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --no-parallel
dh_autoreconf_clean -O--no-parallel
dh_clean -O--no-parallel
debian/rules binary-arch
dh binary-arch --no-parallel
dh_update_autotools_config -a -O--no-parallel
dh_autoreconf -a -O--no-parallel
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<BUILDDIR>>/spoa-4.0.7+ds'
dh_auto_configure -- -DCMAKE_BUILD_TYPE=Release -Dspoa_build_executable=ON -Dspoa_build_tests=ON -Dspoa_use_simde_nonvec=ON -Dspoa_use_simde_openmp=ON -Dspoa_optimize_for_native=OFF -DCMAKE_PREFIX_PATH=/usr/lib/arm-linux-gnueabihf/cmake/CpuFeatures
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_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf -DCMAKE_BUILD_TYPE=Release -Dspoa_build_executable=ON -Dspoa_build_tests=ON -Dspoa_use_simde_nonvec=ON -Dspoa_use_simde_openmp=ON -Dspoa_optimize_for_native=OFF -DCMAKE_PREFIX_PATH=/usr/lib/arm-linux-gnueabihf/cmake/CpuFeatures ..
-- The CXX compiler identification is GNU 10.3.0
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
CMake Deprecation Warning at vendor/cereal/CMakeLists.txt:1 (cmake_minimum_required):
Compatibility with CMake < 2.8.12 will be removed from a future version of
CMake.
Update the VERSION argument <min> value or use a ...<max> suffix to tell
CMake that the project does not need compatibility with older versions.
CMake Warning (dev) at vendor/cereal/CMakeLists.txt:2 (project):
Policy CMP0048 is not set: project() command manages VERSION variables.
Run "cmake --help-policy CMP0048" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
The following variable(s) would be set to empty:
PROJECT_VERSION
PROJECT_VERSION_MAJOR
PROJECT_VERSION_MINOR
PROJECT_VERSION_PATCH
This warning is for project developers. Use -Wno-dev to suppress it.
-- The C compiler identification is GNU 10.3.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Could NOT find Boost (missing: Boost_INCLUDE_DIR serialization)
-- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE)
-- Found GTest: /usr/lib/arm-linux-gnueabihf/cmake/GTest/GTestConfig.cmake (found version "1.11.0")
-- Configuring done
-- Generating done
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_EXPORT_NO_PACKAGE_REGISTRY
CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY
-- Build files have been written to: /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf
make[1]: Leaving directory '/<<BUILDDIR>>/spoa-4.0.7+ds'
dh_auto_build -a -O--no-parallel
cd obj-arm-linux-gnueabihf && make -j1 "INSTALL=install --strip-program=true" VERBOSE=1
make[1]: Entering directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<BUILDDIR>>/spoa-4.0.7+ds -B/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf/CMakeFiles /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make[2]: Entering directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
make -f CMakeFiles/spoa.dir/build.make CMakeFiles/spoa.dir/depend
make[3]: Entering directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/spoa-4.0.7+ds /<<BUILDDIR>>/spoa-4.0.7+ds /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf/CMakeFiles/spoa.dir/DependInfo.cmake --color=
make[3]: Leaving directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
make -f CMakeFiles/spoa.dir/build.make CMakeFiles/spoa.dir/build
make[3]: Entering directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
[ 0%] Building CXX object CMakeFiles/spoa.dir/src/alignment_engine.cpp.o
/usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -Dspoa_EXPORTS -I/<<BUILDDIR>>/spoa-4.0.7+ds/include -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/<<BUILDDIR>>/spoa-4.0.7+ds/src -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -fPIC -std=c++11 -MD -MT CMakeFiles/spoa.dir/src/alignment_engine.cpp.o -MF CMakeFiles/spoa.dir/src/alignment_engine.cpp.o.d -o CMakeFiles/spoa.dir/src/alignment_engine.cpp.o -c /<<BUILDDIR>>/spoa-4.0.7+ds/src/alignment_engine.cpp
[ 12%] Building CXX object CMakeFiles/spoa.dir/src/graph.cpp.o
/usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -Dspoa_EXPORTS -I/<<BUILDDIR>>/spoa-4.0.7+ds/include -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/<<BUILDDIR>>/spoa-4.0.7+ds/src -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -fPIC -std=c++11 -MD -MT CMakeFiles/spoa.dir/src/graph.cpp.o -MF CMakeFiles/spoa.dir/src/graph.cpp.o.d -o CMakeFiles/spoa.dir/src/graph.cpp.o -c /<<BUILDDIR>>/spoa-4.0.7+ds/src/graph.cpp
[ 12%] Building CXX object CMakeFiles/spoa.dir/src/sisd_alignment_engine.cpp.o
/usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -Dspoa_EXPORTS -I/<<BUILDDIR>>/spoa-4.0.7+ds/include -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/<<BUILDDIR>>/spoa-4.0.7+ds/src -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -fPIC -std=c++11 -MD -MT CMakeFiles/spoa.dir/src/sisd_alignment_engine.cpp.o -MF CMakeFiles/spoa.dir/src/sisd_alignment_engine.cpp.o.d -o CMakeFiles/spoa.dir/src/sisd_alignment_engine.cpp.o -c /<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp
/<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp: In member function 'void spoa::SisdAlignmentEngine::Initialize(const char*, uint32_t, const spoa::Graph&)':
/<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:156:7: warning: this statement may fall through [-Wimplicit-fallthrough=]
156 | }
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:157:5: note: here
157 | case AlignmentSubtype::kAffine:
| ^~~~
/<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:173:7: warning: this statement may fall through [-Wimplicit-fallthrough=]
173 | }
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:174:5: note: here
174 | case AlignmentSubtype::kLinear:
| ^~~~
[ 25%] Building CXX object CMakeFiles/spoa.dir/src/dispatcher.cpp.o
/usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -Dspoa_EXPORTS -I/<<BUILDDIR>>/spoa-4.0.7+ds/include -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/<<BUILDDIR>>/spoa-4.0.7+ds/src -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -fPIC -std=c++11 -MD -MT CMakeFiles/spoa.dir/src/dispatcher.cpp.o -MF CMakeFiles/spoa.dir/src/dispatcher.cpp.o.d -o CMakeFiles/spoa.dir/src/dispatcher.cpp.o -c /<<BUILDDIR>>/spoa-4.0.7+ds/src/dispatcher.cpp
In file included from /<<BUILDDIR>>/spoa-4.0.7+ds/src/dispatcher.cpp:3:
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:315:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
315 | std::unique_ptr<__mxxxi[]> sequence_profile_storage;
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:320:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
320 | std::unique_ptr<__mxxxi[]> M_storage;
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:328:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
328 | std::unique_ptr<__mxxxi[]> masks_storage;
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:332:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
332 | std::unique_ptr<__mxxxi[]> penalties_storage;
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine<A>::Realloc(uint64_t, uint64_t, uint8_t)':
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:432:65: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
432 | pimpl_->sequence_profile_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:446:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
446 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:462:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
462 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:480:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
480 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:491:54: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
491 | pimpl_->masks_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:501:58: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
501 | pimpl_->penalties_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine<A>::Initialize(const char*, const spoa::Graph&, uint64_t, uint64_t, uint64_t) [with T = spoa::InstructionSet<spoa::Architecture::kAutomatic, int>; spoa::Architecture A = spoa::Architecture::kAutomatic]':
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:557:7: warning: this statement may fall through [-Wimplicit-fallthrough=]
557 | for (std::uint32_t i = 1; i < matrix_height; ++i) {
| ^~~
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:566:5: note: here
566 | case AlignmentSubtype::kAffine:
| ^~~~
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine<A>::Initialize(const char*, const spoa::Graph&, uint64_t, uint64_t, uint64_t) [with T = spoa::InstructionSet<spoa::Architecture::kAutomatic, short int>; spoa::Architecture A = spoa::Architecture::kAutomatic]':
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:557:7: warning: this statement may fall through [-Wimplicit-fallthrough=]
557 | for (std::uint32_t i = 1; i < matrix_height; ++i) {
| ^~~
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:566:5: note: here
566 | case AlignmentSubtype::kAffine:
| ^~~~
[ 37%] Linking CXX shared library lib/libspoa.so
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/usr/bin/cmake -E cmake_symlink_library lib/libspoa.so.7.0.0 lib/libspoa.so.7.0.0 lib/libspoa.so
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cd /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/spoa-4.0.7+ds /<<BUILDDIR>>/spoa-4.0.7+ds /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf/CMakeFiles/spoa_exe.dir/DependInfo.cmake --color=
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[ 37%] Building CXX object CMakeFiles/spoa_exe.dir/src/main.cpp.o
/usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DSPOA_VERSION=\"v4.0.7\" -DUSE_SIMDE -I/<<BUILDDIR>>/spoa-4.0.7+ds/src -I/<<BUILDDIR>>/spoa-4.0.7+ds/include -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -MD -MT CMakeFiles/spoa_exe.dir/src/main.cpp.o -MF CMakeFiles/spoa_exe.dir/src/main.cpp.o.d -o CMakeFiles/spoa_exe.dir/src/main.cpp.o -c /<<BUILDDIR>>/spoa-4.0.7+ds/src/main.cpp
[ 50%] Linking CXX executable bin/spoa
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/usr/bin/c++ -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -Wl,-z,relro -Wl,-z,now CMakeFiles/spoa_exe.dir/src/main.cpp.o -o bin/spoa -Wl,-rpath,/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf/lib: lib/libspoa.so.7.0.0 -lz
make[3]: Leaving directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
[ 50%] Built target spoa_exe
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[ 62%] Linking CXX executable bin/spoa_test
/usr/bin/cmake -E cmake_link_script CMakeFiles/spoa_test.dir/link.txt --verbose=1
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[ 62%] Building CXX object CMakeFiles/spoa_static.dir/src/alignment_engine.cpp.o
/usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -I/<<BUILDDIR>>/spoa-4.0.7+ds/include -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/<<BUILDDIR>>/spoa-4.0.7+ds/src -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -MD -MT CMakeFiles/spoa_static.dir/src/alignment_engine.cpp.o -MF CMakeFiles/spoa_static.dir/src/alignment_engine.cpp.o.d -o CMakeFiles/spoa_static.dir/src/alignment_engine.cpp.o -c /<<BUILDDIR>>/spoa-4.0.7+ds/src/alignment_engine.cpp
[ 75%] Building CXX object CMakeFiles/spoa_static.dir/src/graph.cpp.o
/usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -I/<<BUILDDIR>>/spoa-4.0.7+ds/include -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/<<BUILDDIR>>/spoa-4.0.7+ds/src -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -MD -MT CMakeFiles/spoa_static.dir/src/graph.cpp.o -MF CMakeFiles/spoa_static.dir/src/graph.cpp.o.d -o CMakeFiles/spoa_static.dir/src/graph.cpp.o -c /<<BUILDDIR>>/spoa-4.0.7+ds/src/graph.cpp
[ 75%] Building CXX object CMakeFiles/spoa_static.dir/src/sisd_alignment_engine.cpp.o
/usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -I/<<BUILDDIR>>/spoa-4.0.7+ds/include -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/<<BUILDDIR>>/spoa-4.0.7+ds/src -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -MD -MT CMakeFiles/spoa_static.dir/src/sisd_alignment_engine.cpp.o -MF CMakeFiles/spoa_static.dir/src/sisd_alignment_engine.cpp.o.d -o CMakeFiles/spoa_static.dir/src/sisd_alignment_engine.cpp.o -c /<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp
/<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp: In member function 'void spoa::SisdAlignmentEngine::Initialize(const char*, uint32_t, const spoa::Graph&)':
/<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:156:7: warning: this statement may fall through [-Wimplicit-fallthrough=]
156 | }
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:157:5: note: here
157 | case AlignmentSubtype::kAffine:
| ^~~~
/<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:173:7: warning: this statement may fall through [-Wimplicit-fallthrough=]
173 | }
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/sisd_alignment_engine.cpp:174:5: note: here
174 | case AlignmentSubtype::kLinear:
| ^~~~
[ 87%] Building CXX object CMakeFiles/spoa_static.dir/src/dispatcher.cpp.o
/usr/bin/c++ -DSIMDE_ENABLE_NATIVE_ALIASES -DSIMDE_ENABLE_OPENMP -DSIMDE_NO_NATIVE -DUSE_SIMDE -I/<<BUILDDIR>>/spoa-4.0.7+ds/include -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/simde -I/usr/include/cpu_features -I/<<BUILDDIR>>/spoa-4.0.7+ds/src -I/<<BUILDDIR>>/spoa-4.0.7+ds/vendor/cereal/include -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/spoa-4.0.7+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -fopenmp-simd -O3 -DNDEBUG -std=c++11 -MD -MT CMakeFiles/spoa_static.dir/src/dispatcher.cpp.o -MF CMakeFiles/spoa_static.dir/src/dispatcher.cpp.o.d -o CMakeFiles/spoa_static.dir/src/dispatcher.cpp.o -c /<<BUILDDIR>>/spoa-4.0.7+ds/src/dispatcher.cpp
In file included from /<<BUILDDIR>>/spoa-4.0.7+ds/src/dispatcher.cpp:3:
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:315:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
315 | std::unique_ptr<__mxxxi[]> sequence_profile_storage;
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:320:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
320 | std::unique_ptr<__mxxxi[]> M_storage;
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:328:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
328 | std::unique_ptr<__mxxxi[]> masks_storage;
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:332:28: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
332 | std::unique_ptr<__mxxxi[]> penalties_storage;
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine<A>::Realloc(uint64_t, uint64_t, uint8_t)':
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:432:65: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
432 | pimpl_->sequence_profile_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:446:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
446 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:462:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
462 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:480:52: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
480 | pimpl_->M_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:491:54: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
491 | pimpl_->masks_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:501:58: warning: ignoring attributes on template argument 'spoa::__mxxxi []' {aka '__m128i []'} [-Wignored-attributes]
501 | pimpl_->penalties_storage = std::unique_ptr<__mxxxi[]>(storage);
| ^
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine<A>::Initialize(const char*, const spoa::Graph&, uint64_t, uint64_t, uint64_t) [with T = spoa::InstructionSet<spoa::Architecture::kAutomatic, int>; spoa::Architecture A = spoa::Architecture::kAutomatic]':
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:557:7: warning: this statement may fall through [-Wimplicit-fallthrough=]
557 | for (std::uint32_t i = 1; i < matrix_height; ++i) {
| ^~~
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:566:5: note: here
566 | case AlignmentSubtype::kAffine:
| ^~~~
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp: In member function 'void spoa::SimdAlignmentEngine<A>::Initialize(const char*, const spoa::Graph&, uint64_t, uint64_t, uint64_t) [with T = spoa::InstructionSet<spoa::Architecture::kAutomatic, short int>; spoa::Architecture A = spoa::Architecture::kAutomatic]':
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:557:7: warning: this statement may fall through [-Wimplicit-fallthrough=]
557 | for (std::uint32_t i = 1; i < matrix_height; ++i) {
| ^~~
/<<BUILDDIR>>/spoa-4.0.7+ds/src/simd_alignment_engine_implementation.hpp:566:5: note: here
566 | case AlignmentSubtype::kAffine:
| ^~~~
[100%] Linking CXX static library lib/libspoa_static.a
/usr/bin/cmake -P CMakeFiles/spoa_static.dir/cmake_clean_target.cmake
/usr/bin/cmake -E cmake_link_script CMakeFiles/spoa_static.dir/link.txt --verbose=1
/usr/bin/ar qc lib/libspoa_static.a CMakeFiles/spoa_static.dir/src/alignment_engine.cpp.o CMakeFiles/spoa_static.dir/src/graph.cpp.o CMakeFiles/spoa_static.dir/src/sisd_alignment_engine.cpp.o CMakeFiles/spoa_static.dir/src/dispatcher.cpp.o
/usr/bin/ranlib lib/libspoa_static.a
make[3]: Leaving directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
[100%] Built target spoa_static
make[2]: Leaving directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
/usr/bin/cmake -E cmake_progress_start /<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf/CMakeFiles 0
make[1]: Leaving directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<BUILDDIR>>/spoa-4.0.7+ds'
`find . -name spoa_test`
Running main() from ./googletest/src/gtest_main.cc
[==========] Running 23 tests from 2 test suites.
[----------] Global test environment set-up.
[----------] 3 tests from SpoaAlignmentTest
[ RUN ] SpoaAlignmentTest.TypeError
[ OK ] SpoaAlignmentTest.TypeError (0 ms)
[ RUN ] SpoaAlignmentTest.EmptyInput
[ OK ] SpoaAlignmentTest.EmptyInput (0 ms)
[ RUN ] SpoaAlignmentTest.LargeInput
[ OK ] SpoaAlignmentTest.LargeInput (0 ms)
[----------] 3 tests from SpoaAlignmentTest (0 ms total)
[----------] 20 tests from SpoaTest
[ RUN ] SpoaTest.Clear
[ OK ] SpoaTest.Clear (7839 ms)
[ RUN ] SpoaTest.Archive
[ OK ] SpoaTest.Archive (17 ms)
[ RUN ] SpoaTest.Local
[ OK ] SpoaTest.Local (4015 ms)
[ RUN ] SpoaTest.LocalAffine
[ OK ] SpoaTest.LocalAffine (5485 ms)
[ RUN ] SpoaTest.LocalConvex
[ OK ] SpoaTest.LocalConvex (9263 ms)
[ RUN ] SpoaTest.LocalWithQualities
[ OK ] SpoaTest.LocalWithQualities (3724 ms)
[ RUN ] SpoaTest.LocalAffineWithQualities
[ OK ] SpoaTest.LocalAffineWithQualities (5194 ms)
[ RUN ] SpoaTest.LocalConvexWithQualities
[ OK ] SpoaTest.LocalConvexWithQualities (9299 ms)
[ RUN ] SpoaTest.Global
[ OK ] SpoaTest.Global (3801 ms)
[ RUN ] SpoaTest.GlobalAffine
[ OK ] SpoaTest.GlobalAffine (5342 ms)
[ RUN ] SpoaTest.GlobalConvex
[ OK ] SpoaTest.GlobalConvex (9620 ms)
[ RUN ] SpoaTest.GlobalWithQualities
[ OK ] SpoaTest.GlobalWithQualities (3800 ms)
[ RUN ] SpoaTest.GlobalAffineWithQualities
[ OK ] SpoaTest.GlobalAffineWithQualities (5147 ms)
[ RUN ] SpoaTest.GlobalConvexWithQualities
[ OK ] SpoaTest.GlobalConvexWithQualities (8960 ms)
[ RUN ] SpoaTest.SemiGlobal
[ OK ] SpoaTest.SemiGlobal (3479 ms)
[ RUN ] SpoaTest.SemiGlobalAffine
[ OK ] SpoaTest.SemiGlobalAffine (4923 ms)
[ RUN ] SpoaTest.SemiGlobalConvex
[ OK ] SpoaTest.SemiGlobalConvex (8962 ms)
[ RUN ] SpoaTest.SemiGlobalWithQualities
[ OK ] SpoaTest.SemiGlobalWithQualities (3473 ms)
[ RUN ] SpoaTest.SemiGlobalAffineWithQualities
[ OK ] SpoaTest.SemiGlobalAffineWithQualities (4916 ms)
[ RUN ] SpoaTest.SemiGlobalConvexWithQualities
[ OK ] SpoaTest.SemiGlobalConvexWithQualities (9461 ms)
[----------] 20 tests from SpoaTest (116746 ms total)
[----------] Global test environment tear-down
[==========] 23 tests from 2 test suites ran. (116747 ms total)
[ PASSED ] 23 tests.
`find . -name spoa | grep bin` test/data/sample.fastq.gz
>Consensus LN:i:495
AATGATGCGCTTTGTTGGCGCGGTGGCTTGATGCAGGGGCTAATCGACCTCTGGCAACCACTTTTCCATGACAGGAGTTGAATATGGCATTCAGTAATCCCTTCGATGATCCGCAGGGAGCGTTTTACATATTGCGCAATGCGCAGGGCAATTCAGTCTGTGGCCGCAACAATGCGTCTTACCGGCAGGCTGGGACATTGTGTGTCAGCCGCAGTCACAGGCGTCCTGCCAGCAGTGGCTGGAAGCCCACTGGCGTACTCTGACACCGACGAATTTTACCCAGTTGCAGGAGGCACAATGAGCCAGCATTTACCTTTGGTCGCCGCACAGCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTTTACACGCGCAACCAAGGATTTCGG
make[1]: Leaving directory '/<<BUILDDIR>>/spoa-4.0.7+ds'
create-stamp debian/debhelper-build-stamp
dh_testroot -a -O--no-parallel
dh_prep -a -O--no-parallel
dh_auto_install -a -O--no-parallel
cd obj-arm-linux-gnueabihf && make -j1 install DESTDIR=/<<BUILDDIR>>/spoa-4.0.7\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<BUILDDIR>>/spoa-4.0.7+ds -B/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
make -f CMakeFiles/Makefile2 preinstall
make[2]: Entering directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
make[2]: Nothing to be done for 'preinstall'.
make[2]: Leaving directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
Install the project...
/usr/bin/cmake -P cmake_install.cmake
-- Install configuration: "Release"
-- Installing: /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libspoa.so.7.0.0
-- Installing: /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libspoa.so
-- Installing: /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libspoa_static.a
-- Installing: /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/include/spoa
-- Installing: /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/include/spoa/architectures.hpp
-- Installing: /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/include/spoa/graph.hpp
-- Installing: /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/include/spoa/alignment_engine.hpp
-- Installing: /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/include/spoa/spoa.hpp
-- Installing: /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig/spoa-1.pc
-- Installing: /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/bin/spoa
-- Set runtime path of "/<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/bin/spoa" to ""
make[1]: Leaving directory '/<<BUILDDIR>>/spoa-4.0.7+ds/obj-arm-linux-gnueabihf'
debian/rules override_dh_install
make[1]: Entering directory '/<<BUILDDIR>>/spoa-4.0.7+ds'
dh_install
d-shlibmove --commit \
--multiarch \
--devunversioned \
--exclude-la \
--exclude-a \
--movedev debian/tmp/usr/include/spoa usr/include \
--movedev debian/tmp/usr/lib/*/pkgconfig usr/lib/arm-linux-gnueabihf \
debian/tmp/usr/lib/*/*.so
Library package automatic movement utility
set -e
install -d -m 755 debian/libspoa-dev/usr/lib/arm-linux-gnueabihf
install -d -m 755 debian/libspoa7.0.0/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libspoa.so debian/libspoa-dev/usr/lib/arm-linux-gnueabihf
mv /<<BUILDDIR>>/spoa-4.0.7+ds/debian/tmp/usr/lib/arm-linux-gnueabihf/libspoa.so.7.0.0 debian/libspoa7.0.0/usr/lib/arm-linux-gnueabihf
PKGDEV=libspoa-dev
PKGSHL=libspoa7.0.0
install -d -m 755 debian/libspoa-dev/usr/include
mv debian/tmp/usr/include/spoa debian/libspoa-dev/usr/include
install -d -m 755 debian/libspoa-dev/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig debian/libspoa-dev/usr/lib/arm-linux-gnueabihf
make[1]: Leaving directory '/<<BUILDDIR>>/spoa-4.0.7+ds'
dh_installdocs -a -O--no-parallel
dh_installchangelogs -a -O--no-parallel
dh_installexamples -a -O--no-parallel
dh_installman -a -O--no-parallel
dh_installsystemduser -a -O--no-parallel
dh_perl -a -O--no-parallel
dh_link -a -O--no-parallel
dh_strip_nondeterminism -a -O--no-parallel
dh_compress -a -O--no-parallel
dh_fixperms -a -O--no-parallel
dh_missing -a -O--no-parallel
dh_dwz -a -O--no-parallel
dh_strip -a -O--no-parallel
dh_makeshlibs -a -O--no-parallel
dh_shlibdeps -a -O--no-parallel
dpkg-shlibdeps: warning: debian/spoa/usr/bin/spoa 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/spoa/usr/bin/spoa was not linked against ld-linux-armhf.so.3 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libspoa7.0.0/usr/lib/arm-linux-gnueabihf/libspoa.so.7.0.0 found in none of the libraries
dh_installdeb -a -O--no-parallel
dh_gencontrol -a -O--no-parallel
dpkg-gencontrol: warning: Depends field of package libspoa-dev: substitution variable ${shlibs:Depends} used, but is not defined
dh_md5sums -a -O--no-parallel
dh_builddeb -a -O--no-parallel
dpkg-deb: building package 'spoa' in '../spoa_4.0.7+ds-2_armhf.deb'.
dpkg-deb: building package 'libspoa-dev' in '../libspoa-dev_4.0.7+ds-2_armhf.deb'.
dpkg-deb: building package 'libspoa7.0.0' in '../libspoa7.0.0_4.0.7+ds-2_armhf.deb'.
dpkg-deb: building package 'spoa-dbgsym' in '../spoa-dbgsym_4.0.7+ds-2_armhf.deb'.
dpkg-deb: building package 'libspoa7.0.0-dbgsym' in '../libspoa7.0.0-dbgsym_4.0.7+ds-2_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../spoa_4.0.7+ds-2_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 2021-10-17T09:22:36Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
spoa_4.0.7+ds-2_armhf.changes:
------------------------------
Format: 1.8
Date: Fri, 15 Oct 2021 13:46:21 +0200
Source: spoa
Binary: libspoa-dev libspoa7.0.0 libspoa7.0.0-dbgsym spoa spoa-dbgsym
Architecture: armhf
Version: 4.0.7+ds-2
Distribution: bookworm-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Michael R. Crusoe <crusoe@debian.org>
Description:
libspoa-dev - SIMD partial order alignment library (development files)
libspoa7.0.0 - SIMD partial order alignment library
spoa - SIMD partial order alignment tool
Closes: 984348
Changes:
spoa (4.0.7+ds-2) unstable; urgency=medium
.
* Team upload.
* Packaging update
* Standards-Version: 4.6.0 (routine-update)
* Freshen symbols for GCC 11. Closes: #984348
Checksums-Sha1:
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64b02e46ad7a605411147b23707b3d9185f6b576 51360 libspoa7.0.0_4.0.7+ds-2_armhf.deb
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66310774ae61cca817ee940ef35f31179fb7af7f 7405 spoa_4.0.7+ds-2_armhf.buildinfo
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Checksums-Sha256:
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Files:
13df1034d4b7493ae1901d94b8501afd 6772 libdevel optional libspoa-dev_4.0.7+ds-2_armhf.deb
ba0380273db6f1a53c9bfaca466f7fc4 702356 debug optional libspoa7.0.0-dbgsym_4.0.7+ds-2_armhf.deb
bdc4d8f2008d08ad99d057a8947b1228 51360 libs optional libspoa7.0.0_4.0.7+ds-2_armhf.deb
94f46a9f12e4d4d37c67885b3dcd1961 299368 debug optional spoa-dbgsym_4.0.7+ds-2_armhf.deb
63f151f804b1df82d13053e2a34c9627 7405 science optional spoa_4.0.7+ds-2_armhf.buildinfo
35de66a9f4ad341099f4d3113e822be4 34784 science optional spoa_4.0.7+ds-2_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
libspoa-dev_4.0.7+ds-2_armhf.deb
--------------------------------
new Debian package, version 2.0.
size 6772 bytes: control archive=1016 bytes.
822 bytes, 20 lines control
494 bytes, 7 lines md5sums
Package: libspoa-dev
Source: spoa
Version: 4.0.7+ds-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 30
Depends: libspoa7.0.0 (= 4.0.7+ds-2), libcereal-dev
Section: libdevel
Priority: optional
Multi-Arch: same
Homepage: https://github.com/rvaser/spoa
Description: SIMD partial order alignment library (development files)
Spoa (SIMD POA) is a c++ implementation of the partial order alignment
(POA) algorithm (as described in 10.1093/bioinformatics/18.3.452) which
is used to generate consensus sequences (as described in
10.1093/bioinformatics/btg109). It supports three alignment modes: local
(Smith-Waterman), global (Needleman-Wunsch) and semi-global alignment
(overlap).
.
This package contains the static library and the header files.
drwxr-xr-x root/root 0 2021-10-15 11:46 ./
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/include/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/include/spoa/
-rw-r--r-- root/root 2195 2021-01-18 14:36 ./usr/include/spoa/alignment_engine.hpp
-rw-r--r-- root/root 261 2021-01-18 14:36 ./usr/include/spoa/architectures.hpp
-rw-r--r-- root/root 7533 2021-01-18 14:36 ./usr/include/spoa/graph.hpp
-rw-r--r-- root/root 163 2021-01-18 14:36 ./usr/include/spoa/spoa.hpp
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/arm-linux-gnueabihf/
lrwxrwxrwx root/root 0 2021-10-15 11:46 ./usr/lib/arm-linux-gnueabihf/libspoa.so -> libspoa.so.7.0.0
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/arm-linux-gnueabihf/pkgconfig/
-rw-r--r-- root/root 237 2021-10-15 11:46 ./usr/lib/arm-linux-gnueabihf/pkgconfig/spoa-1.pc
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/doc/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/doc/libspoa-dev/
-rw-r--r-- root/root 1896 2021-10-15 11:46 ./usr/share/doc/libspoa-dev/changelog.Debian.gz
-rw-r--r-- root/root 1472 2021-01-19 06:33 ./usr/share/doc/libspoa-dev/copyright
libspoa7.0.0-dbgsym_4.0.7+ds-2_armhf.deb
----------------------------------------
new Debian package, version 2.0.
size 702356 bytes: control archive=556 bytes.
405 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libspoa7.0.0-dbgsym
Source: spoa
Version: 4.0.7+ds-2
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 712
Depends: libspoa7.0.0 (= 4.0.7+ds-2)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libspoa7.0.0
Build-Ids: 8f4371326de516453710e0b6fa6e598bbe637a70
drwxr-xr-x root/root 0 2021-10-15 11:46 ./
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/debug/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/debug/.build-id/8f/
-rw-r--r-- root/root 718276 2021-10-15 11:46 ./usr/lib/debug/.build-id/8f/4371326de516453710e0b6fa6e598bbe637a70.debug
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/doc/
lrwxrwxrwx root/root 0 2021-10-15 11:46 ./usr/share/doc/libspoa7.0.0-dbgsym -> libspoa7.0.0
libspoa7.0.0_4.0.7+ds-2_armhf.deb
---------------------------------
new Debian package, version 2.0.
size 51360 bytes: control archive=980 bytes.
792 bytes, 20 lines control
231 bytes, 3 lines md5sums
41 bytes, 1 lines shlibs
67 bytes, 2 lines triggers
Package: libspoa7.0.0
Source: spoa
Version: 4.0.7+ds-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 144
Depends: libc6 (>= 2.4), libgcc-s1 (>= 3.5), libstdc++6 (>= 5.2)
Section: libs
Priority: optional
Multi-Arch: same
Homepage: https://github.com/rvaser/spoa
Description: SIMD partial order alignment library
Spoa (SIMD POA) is a c++ implementation of the partial order alignment
(POA) algorithm (as described in 10.1093/bioinformatics/18.3.452) which
is used to generate consensus sequences (as described in
10.1093/bioinformatics/btg109). It supports three alignment modes: local
(Smith-Waterman), global (Needleman-Wunsch) and semi-global alignment
(overlap).
.
This package contains the shared library.
drwxr-xr-x root/root 0 2021-10-15 11:46 ./
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 132512 2021-10-15 11:46 ./usr/lib/arm-linux-gnueabihf/libspoa.so.7.0.0
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/doc/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/doc/libspoa7.0.0/
-rw-r--r-- root/root 1896 2021-10-15 11:46 ./usr/share/doc/libspoa7.0.0/changelog.Debian.gz
-rw-r--r-- root/root 1472 2021-01-19 06:33 ./usr/share/doc/libspoa7.0.0/copyright
spoa-dbgsym_4.0.7+ds-2_armhf.deb
--------------------------------
new Debian package, version 2.0.
size 299368 bytes: control archive=532 bytes.
364 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: spoa-dbgsym
Source: spoa
Version: 4.0.7+ds-2
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 313
Depends: spoa (= 4.0.7+ds-2)
Section: debug
Priority: optional
Description: debug symbols for spoa
Build-Ids: 881a8d82e3435dd1ed377667aa97bdca325dc45d
drwxr-xr-x root/root 0 2021-10-15 11:46 ./
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/debug/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/lib/debug/.build-id/88/
-rw-r--r-- root/root 309940 2021-10-15 11:46 ./usr/lib/debug/.build-id/88/1a8d82e3435dd1ed377667aa97bdca325dc45d.debug
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/doc/
lrwxrwxrwx root/root 0 2021-10-15 11:46 ./usr/share/doc/spoa-dbgsym -> spoa
spoa_4.0.7+ds-2_armhf.deb
-------------------------
new Debian package, version 2.0.
size 34784 bytes: control archive=936 bytes.
756 bytes, 16 lines control
391 bytes, 6 lines md5sums
Package: spoa
Version: 4.0.7+ds-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 65
Depends: libc6 (>= 2.4), libgcc-s1 (>= 3.5), libspoa7.0.0 (>= 4.0.7+ds), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4)
Section: science
Priority: optional
Homepage: https://github.com/rvaser/spoa
Description: SIMD partial order alignment tool
Spoa (SIMD POA) is a c++ implementation of the partial order alignment
(POA) algorithm (as described in 10.1093/bioinformatics/18.3.452) which
is used to generate consensus sequences (as described in
10.1093/bioinformatics/btg109). It supports three alignment modes: local
(Smith-Waterman), global (Needleman-Wunsch) and semi-global alignment
(overlap).
drwxr-xr-x root/root 0 2021-10-15 11:46 ./
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/bin/
-rwxr-xr-x root/root 34424 2021-10-15 11:46 ./usr/bin/spoa
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/doc/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/doc/spoa/
-rw-r--r-- root/root 1896 2021-10-15 11:46 ./usr/share/doc/spoa/changelog.Debian.gz
-rw-r--r-- root/root 1472 2021-01-19 06:33 ./usr/share/doc/spoa/copyright
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/doc/spoa/examples/
-rw-r--r-- root/root 15064 2021-10-15 11:46 ./usr/share/doc/spoa/examples/sample.fastq.gz
-rw-r--r-- root/root 294 2020-12-23 09:24 ./usr/share/doc/spoa/run-unit-test
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/man/
drwxr-xr-x root/root 0 2021-10-15 11:46 ./usr/share/man/man1/
-rw-r--r-- root/root 700 2021-10-15 11:46 ./usr/share/man/man1/spoa.1.gz
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| Cleanup |
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Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
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| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 45812
Build-Time: 583
Distribution: bookworm-staging
Host Architecture: armhf
Install-Time: 451
Job: spoa_4.0.7+ds-2
Machine Architecture: armhf
Package: spoa
Package-Time: 1083
Source-Version: 4.0.7+ds-2
Space: 45812
Status: successful
Version: 4.0.7+ds-2
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Finished at 2021-10-17T09:22:36Z
Build needed 00:18:03, 45812k disc space