rapmap →
0.15.0+dfsg-3 →
armhf → 2023-11-06 20:02:34
sbuild (Debian sbuild) 0.85.0 (04 January 2023) on test2023
+==============================================================================+
| rapmap 0.15.0+dfsg-3 (armhf) Mon, 06 Nov 2023 20:01:20 +0000 |
+==============================================================================+
Package: rapmap
Version: 0.15.0+dfsg-3
Source Version: 0.15.0+dfsg-3
Distribution: trixie-staging
Machine Architecture: arm64
Host Architecture: armhf
Build Architecture: armhf
Build Type: any
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/trixie-staging-armhf-sbuild-4abf606d-095d-4c66-bb2b-f91ec5333ccb' with '<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/rapmap-u9nHm6/resolver-YQtcXf' with '<<RESOLVERDIR>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private trixie-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private trixie-staging/main Sources [14.2 MB]
Get:3 http://172.17.4.1/private trixie-staging/main armhf Packages [14.9 MB]
Fetched 29.1 MB in 5s (5453 kB/s)
Reading package lists...
W: http://172.17.4.1/private/dists/trixie-staging/InRelease: Key is stored in legacy trusted.gpg keyring (/etc/apt/trusted.gpg), see the DEPRECATION section in apt-key(8) for details.
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'rapmap' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/rapmap.git
Please use:
git clone https://salsa.debian.org/med-team/rapmap.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 642 kB of source archives.
Get:1 http://172.17.4.1/private trixie-staging/main rapmap 0.15.0+dfsg-3 (dsc) [2347 B]
Get:2 http://172.17.4.1/private trixie-staging/main rapmap 0.15.0+dfsg-3 (tar) [625 kB]
Get:3 http://172.17.4.1/private trixie-staging/main rapmap 0.15.0+dfsg-3 (diff) [14.8 kB]
Fetched 642 kB in 0s (4388 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/rapmap-u9nHm6/rapmap-0.15.0+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/rapmap-u9nHm6' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), cmake, zlib1g-dev, libdivsufsort-dev, libcereal-dev, libjellyfish-2.0-dev, libjemalloc-dev, libsimde-dev, libsparsehash-dev, libspdlog-dev, libtclap-dev, pkg-config, python3-markdown, python3, build-essential, fakeroot
Filtered Build-Depends: debhelper-compat (= 13), cmake, zlib1g-dev, libdivsufsort-dev, libcereal-dev, libjellyfish-2.0-dev, libjemalloc-dev, libsimde-dev, libsparsehash-dev, libspdlog-dev, libtclap-dev, pkg-config, python3-markdown, python3, build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<<RESOLVERDIR>>/apt_archive/sbuild-build-depends-main-dummy.deb'.
Ign:1 copy:/<<RESOLVERDIR>>/apt_archive ./ InRelease
Get:2 copy:/<<RESOLVERDIR>>/apt_archive ./ Release [609 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [810 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [842 B]
Fetched 2261 B in 0s (0 B/s)
Reading package lists...
Reading package lists...
Install main build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils catch2 cmake
cmake-data debhelper dh-autoreconf dh-strip-nondeterminism dpkg-dev dwz file
gettext gettext-base groff-base intltool-debian libarchive-zip-perl
libarchive13 libbrotli1 libcereal-dev libcurl4 libdebhelper-perl
libdivsufsort-dev libdivsufsort3 libdpkg-perl libelf1 libexpat1
libfile-stripnondeterminism-perl libfmt-dev libfmt9 libicu72
libjellyfish-2.0-2 libjellyfish-2.0-dev libjemalloc-dev libjemalloc2
libjsoncpp25 libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpkgconf3
libproc2-0 libpsl5 libpython3-stdlib libpython3.11-minimal
libpython3.11-stdlib librhash0 librtmp1 libsimde-dev libsparsehash-dev
libspdlog-dev libspdlog1.10 libssh2-1 libsub-override-perl libtclap-dev
libtool libuchardet0 libuv1 libxml2 m4 man-db media-types pkg-config pkgconf
pkgconf-bin po-debconf procps python3 python3-importlib-metadata
python3-markdown python3-minimal python3-more-itertools
python3-typing-extensions python3-zipp python3.11 python3.11-minimal
rapidjson-dev sensible-utils zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc cmake-doc cmake-format
elpa-cmake-mode ninja-build dh-make debian-keyring gettext-doc
libasprintf-dev libgettextpo-dev groff lrzip git bzr libfmt-doc qtbase5-dev
libsystemd-dev libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc
apparmor less www-browser libmail-box-perl python3-doc python3-tk
python3-venv python-markdown-doc python3.11-venv python3.11-doc
binfmt-support rapidjson-doc
Recommended packages:
libalgorithm-merge-perl curl | wget | lynx ca-certificates
libfile-fcntllock-perl libarchive-cpio-perl publicsuffix libltdl-dev
libmail-sendmail-perl psmisc python3-pygments python3-yaml
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils catch2 cmake
cmake-data debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext
gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13
libbrotli1 libcereal-dev libcurl4 libdebhelper-perl libdivsufsort-dev
libdivsufsort3 libelf1 libexpat1 libfile-stripnondeterminism-perl libfmt-dev
libfmt9 libicu72 libjellyfish-2.0-2 libjellyfish-2.0-dev libjemalloc-dev
libjemalloc2 libjsoncpp25 libmagic-mgc libmagic1 libnghttp2-14 libpipeline1
libpkgconf3 libproc2-0 libpsl5 libpython3-stdlib libpython3.11-minimal
libpython3.11-stdlib librhash0 librtmp1 libsimde-dev libsparsehash-dev
libspdlog-dev libspdlog1.10 libssh2-1 libsub-override-perl libtclap-dev
libtool libuchardet0 libuv1 libxml2 m4 man-db media-types pkg-config pkgconf
pkgconf-bin po-debconf procps python3 python3-importlib-metadata
python3-markdown python3-minimal python3-more-itertools
python3-typing-extensions python3-zipp python3.11 python3.11-minimal
rapidjson-dev sbuild-build-depends-main-dummy sensible-utils zlib1g-dev
The following packages will be upgraded:
dpkg-dev libdpkg-perl
2 upgraded, 80 newly installed, 0 to remove and 8 not upgraded.
1 not fully installed or removed.
Need to get 42.8 MB/44.8 MB of archives.
After this operation, 171 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [968 B]
Get:2 http://172.17.4.1/private trixie-staging/main armhf libpython3.11-minimal armhf 3.11.6-3 [800 kB]
Get:3 http://172.17.4.1/private trixie-staging/main armhf libexpat1 armhf 2.5.0-2 [76.8 kB]
Get:4 http://172.17.4.1/private trixie-staging/main armhf python3.11-minimal armhf 3.11.6-3 [1674 kB]
Get:5 http://172.17.4.1/private trixie-staging/main armhf python3-minimal armhf 3.11.4-5 [26.2 kB]
Get:6 http://172.17.4.1/private trixie-staging/main armhf media-types all 10.1.0 [26.9 kB]
Get:7 http://172.17.4.1/private trixie-staging/main armhf libpython3.11-stdlib armhf 3.11.6-3 [1679 kB]
Get:8 http://172.17.4.1/private trixie-staging/main armhf python3.11 armhf 3.11.6-3 [586 kB]
Get:9 http://172.17.4.1/private trixie-staging/main armhf libpython3-stdlib armhf 3.11.4-5 [9200 B]
Get:10 http://172.17.4.1/private trixie-staging/main armhf python3 armhf 3.11.4-5 [26.2 kB]
Get:11 http://172.17.4.1/private trixie-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:12 http://172.17.4.1/private trixie-staging/main armhf groff-base armhf 1.23.0-3 [1033 kB]
Get:13 http://172.17.4.1/private trixie-staging/main armhf bsdextrautils armhf 2.39.2-5 [80.8 kB]
Get:14 http://172.17.4.1/private trixie-staging/main armhf libpipeline1 armhf 1.5.7-1 [33.4 kB]
Get:15 http://172.17.4.1/private trixie-staging/main armhf man-db armhf 2.11.2-3 [1342 kB]
Get:16 http://172.17.4.1/private trixie-staging/main armhf libproc2-0 armhf 2:4.0.4-2 [54.9 kB]
Get:17 http://172.17.4.1/private trixie-staging/main armhf procps armhf 2:4.0.4-2 [848 kB]
Get:18 http://172.17.4.1/private trixie-staging/main armhf sensible-utils all 0.0.20 [19.3 kB]
Get:19 http://172.17.4.1/private trixie-staging/main armhf libmagic-mgc armhf 1:5.45-2 [314 kB]
Get:20 http://172.17.4.1/private trixie-staging/main armhf libmagic1 armhf 1:5.45-2 [96.1 kB]
Get:21 http://172.17.4.1/private trixie-staging/main armhf file armhf 1:5.45-2 [41.6 kB]
Get:22 http://172.17.4.1/private trixie-staging/main armhf gettext-base armhf 0.21-13 [156 kB]
Get:23 http://172.17.4.1/private trixie-staging/main armhf m4 armhf 1.4.19-4 [256 kB]
Get:24 http://172.17.4.1/private trixie-staging/main armhf autoconf all 2.71-3 [332 kB]
Get:25 http://172.17.4.1/private trixie-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:26 http://172.17.4.1/private trixie-staging/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get:27 http://172.17.4.1/private trixie-staging/main armhf autopoint all 0.21-13 [496 kB]
Get:28 http://172.17.4.1/private trixie-staging/main armhf catch2 armhf 2.13.10-1 [436 kB]
Get:29 http://172.17.4.1/private trixie-staging/main armhf libicu72 armhf 72.1-4 [9009 kB]
Get:30 http://172.17.4.1/private trixie-staging/main armhf libxml2 armhf 2.9.14+dfsg-1.3 [571 kB]
Get:31 http://172.17.4.1/private trixie-staging/main armhf libarchive13 armhf 3.7.2-1 [294 kB]
Get:32 http://172.17.4.1/private trixie-staging/main armhf libbrotli1 armhf 1.0.9-2+b3 [258 kB]
Get:33 http://172.17.4.1/private trixie-staging/main armhf libnghttp2-14 armhf 1.57.0-1 [61.6 kB]
Get:34 http://172.17.4.1/private trixie-staging/main armhf libpsl5 armhf 0.21.2-1+b1 [57.8 kB]
Get:35 http://172.17.4.1/private trixie-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:36 http://172.17.4.1/private trixie-staging/main armhf libssh2-1 armhf 1.11.0-2 [195 kB]
Get:37 http://172.17.4.1/private trixie-staging/main armhf libcurl4 armhf 8.4.0-2+rpi1 [362 kB]
Get:38 http://172.17.4.1/private trixie-staging/main armhf libjsoncpp25 armhf 1.9.5-6 [64.7 kB]
Get:39 http://172.17.4.1/private trixie-staging/main armhf librhash0 armhf 1.4.3-3 [142 kB]
Get:40 http://172.17.4.1/private trixie-staging/main armhf libuv1 armhf 1.46.0-2+rpi1 [128 kB]
Get:41 http://172.17.4.1/private trixie-staging/main armhf cmake-data all 3.27.7-1 [2104 kB]
Get:42 http://172.17.4.1/private trixie-staging/main armhf cmake armhf 3.27.7-1 [7745 kB]
Get:43 http://172.17.4.1/private trixie-staging/main armhf libdebhelper-perl all 13.11.7 [82.1 kB]
Get:44 http://172.17.4.1/private trixie-staging/main armhf libtool all 2.4.7-7 [517 kB]
Get:45 http://172.17.4.1/private trixie-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:46 http://172.17.4.1/private trixie-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:47 http://172.17.4.1/private trixie-staging/main armhf libsub-override-perl all 0.09-4 [9304 B]
Get:48 http://172.17.4.1/private trixie-staging/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB]
Get:49 http://172.17.4.1/private trixie-staging/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B]
Get:50 http://172.17.4.1/private trixie-staging/main armhf libelf1 armhf 0.188-2.1+rpi1 [171 kB]
Get:51 http://172.17.4.1/private trixie-staging/main armhf dwz armhf 0.15-1 [92.4 kB]
Get:52 http://172.17.4.1/private trixie-staging/main armhf gettext armhf 0.21-13 [1201 kB]
Get:53 http://172.17.4.1/private trixie-staging/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get:54 http://172.17.4.1/private trixie-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:55 http://172.17.4.1/private trixie-staging/main armhf debhelper all 13.11.7 [956 kB]
Get:56 http://172.17.4.1/private trixie-staging/main armhf rapidjson-dev all 1.1.0+dfsg2-7.1 [97.7 kB]
Get:57 http://172.17.4.1/private trixie-staging/main armhf libcereal-dev armhf 1.3.2+dfsg-4+rpi1 [221 kB]
Get:58 http://172.17.4.1/private trixie-staging/main armhf libdivsufsort3 armhf 2.0.1-5 [43.2 kB]
Get:59 http://172.17.4.1/private trixie-staging/main armhf libdivsufsort-dev armhf 2.0.1-5 [19.1 kB]
Get:60 http://172.17.4.1/private trixie-staging/main armhf libfmt9 armhf 9.1.0+ds1-2 [105 kB]
Get:61 http://172.17.4.1/private trixie-staging/main armhf libfmt-dev armhf 9.1.0+ds1-2 [171 kB]
Get:62 http://172.17.4.1/private trixie-staging/main armhf libjellyfish-2.0-2 armhf 2.3.0-16 [54.5 kB]
Get:63 http://172.17.4.1/private trixie-staging/main armhf libjellyfish-2.0-dev armhf 2.3.0-16 [126 kB]
Get:64 http://172.17.4.1/private trixie-staging/main armhf libjemalloc2 armhf 5.3.0-2 [213 kB]
Get:65 http://172.17.4.1/private trixie-staging/main armhf libjemalloc-dev armhf 5.3.0-2 [467 kB]
Get:66 http://172.17.4.1/private trixie-staging/main armhf libpkgconf3 armhf 1.8.1-1 [31.3 kB]
Get:67 http://172.17.4.1/private trixie-staging/main armhf libsimde-dev all 0.7.6-1 [384 kB]
Get:68 http://172.17.4.1/private trixie-staging/main armhf libsparsehash-dev all 2.0.3-2 [76.8 kB]
Get:69 http://172.17.4.1/private trixie-staging/main armhf libspdlog1.10 armhf 1:1.10.0+ds-1 [111 kB]
Get:70 http://172.17.4.1/private trixie-staging/main armhf libspdlog-dev armhf 1:1.10.0+ds-1 [207 kB]
Get:71 http://172.17.4.1/private trixie-staging/main armhf libtclap-dev armhf 1.2.5-1 [3359 kB]
Get:72 http://172.17.4.1/private trixie-staging/main armhf pkgconf-bin armhf 1.8.1-1 [27.8 kB]
Get:73 http://172.17.4.1/private trixie-staging/main armhf pkgconf armhf 1.8.1-1 [25.9 kB]
Get:74 http://172.17.4.1/private trixie-staging/main armhf pkg-config armhf 1.8.1-1 [13.7 kB]
Get:75 http://172.17.4.1/private trixie-staging/main armhf python3-typing-extensions all 4.7.1-2 [62.2 kB]
Get:76 http://172.17.4.1/private trixie-staging/main armhf python3-more-itertools all 10.1.0-1 [59.1 kB]
Get:77 http://172.17.4.1/private trixie-staging/main armhf python3-zipp all 1.0.0-6 [6696 B]
Get:78 http://172.17.4.1/private trixie-staging/main armhf python3-importlib-metadata all 4.12.0-1 [24.9 kB]
Get:79 http://172.17.4.1/private trixie-staging/main armhf python3-markdown all 3.4.4-1 [66.9 kB]
Get:80 http://172.17.4.1/private trixie-staging/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-3 [901 kB]
debconf: delaying package configuration, since apt-utils is not installed
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update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
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Setting up man-db (2.11.2-3) ...
Not building database; man-db/auto-update is not 'true'.
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Processing triggers for libc-bin (2.37-12+rpi2) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 6.1.47-v8+ #1 SMP PREEMPT Fri Sep 1 07:05:33 BST 2023 arm64 (aarch64)
Toolchain package versions: binutils_2.41-6+rpi1 dpkg-dev_1.22.1+rpi1 g++-12_12.3.0-10+rpi1 g++-13_13.2.0-5+rpi1 gcc-12_12.3.0-10+rpi1 gcc-13_13.2.0-5+rpi1 libc6-dev_2.37-12+rpi2 libstdc++-12-dev_12.3.0-10+rpi1 libstdc++-13-dev_13.2.0-5+rpi1 libstdc++6_13.2.0-5+rpi1 linux-libc-dev_6.5.6-1+rpi1
Package versions: adduser_3.137 apt_2.7.6 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-13 autotools-dev_20220109.1 base-files_13+rpi1 base-passwd_3.6.2 bash_5.2.15-2 binutils_2.41-6+rpi1 binutils-arm-linux-gnueabihf_2.41-6+rpi1 binutils-common_2.41-6+rpi1 bsdextrautils_2.39.2-5 bsdutils_1:2.39.2-5 build-essential_12.9 bzip2_1.0.8-5+b2 catch2_2.13.10-1 cmake_3.27.7-1 cmake-data_3.27.7-1 coreutils_9.1-1 cpp_4:13.2.0-1+rpi1 cpp-12_12.3.0-10+rpi1 cpp-13_13.2.0-5+rpi1 dash_0.5.12-6 debconf_1.5.82 debhelper_13.11.7 debianutils_5.14 dh-autoreconf_20 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.10-1 dirmngr_2.2.40-1.1 dpkg_1.22.1+rpi1 dpkg-dev_1.22.1+rpi1 dwz_0.15-1 e2fsprogs_1.47.0-2 fakeroot_1.32.1-1 file_1:5.45-2 findutils_4.9.0-5 g++_4:13.2.0-1+rpi1 g++-12_12.3.0-10+rpi1 g++-13_13.2.0-5+rpi1 gcc_4:13.2.0-1+rpi1 gcc-10-base_10.4.0-7+rpi1 gcc-12_12.3.0-10+rpi1 gcc-12-base_12.3.0-10+rpi1 gcc-13_13.2.0-5+rpi1 gcc-13-base_13.2.0-5+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gcc-9-base_9.4.0-2+rpi1 gettext_0.21-13 gettext-base_0.21-13 gnupg_2.2.40-1.1 gnupg-l10n_2.2.40-1.1 gnupg-utils_2.2.40-1.1 gpg_2.2.40-1.1 gpg-agent_2.2.40-1.1 gpg-wks-client_2.2.40-1.1 gpg-wks-server_2.2.40-1.1 gpgconf_2.2.40-1.1 gpgsm_2.2.40-1.1 gpgv_2.2.40-1.1 grep_3.11-3 groff-base_1.23.0-3 gzip_1.12-1 hostname_3.23+nmu1 init-system-helpers_1.65.2 intltool-debian_0.35.0+20060710.6 libacl1_2.3.1-3 libapt-pkg6.0_2.7.6 libarchive-zip-perl_1.68-1 libarchive13_3.7.2-1 libasan8_13.2.0-5+rpi1 libassuan0_2.5.6-1 libatomic1_13.2.0-5+rpi1 libattr1_1:2.5.1-4 libaudit-common_1:3.1.1-1 libaudit1_1:3.1.1-1 libbinutils_2.41-6+rpi1 libblkid1_2.39.2-5 libbrotli1_1.0.9-2+b3 libbz2-1.0_1.0.8-5+b2 libc-bin_2.37-12+rpi2 libc-dev-bin_2.37-12+rpi2 libc6_2.37-12+rpi2 libc6-dev_2.37-12+rpi2 libcap-ng0_0.8.3-1+b1 libcap2_1:2.66-4 libcc1-0_13.2.0-5+rpi1 libcereal-dev_1.3.2+dfsg-4+rpi1 libcom-err2_1.47.0-2 libcrypt-dev_1:4.4.36-2 libcrypt1_1:4.4.36-2 libctf-nobfd0_2.41-6+rpi1 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liblocale-gettext-perl_1.07-6 liblz4-1_1.9.4-1+rpi1+b1 liblzma5_5.4.4-0.1 libmagic-mgc_1:5.45-2 libmagic1_1:5.45-2 libmd0_1.1.0-1 libmount1_2.39.2-5 libmpc3_1.3.1-1 libmpfr6_4.2.1-1 libncursesw6_6.4+20231016-1 libnettle8_3.9.1-2 libnghttp2-14_1.57.0-1 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.25.0-5 libpam-modules_1.5.2-9.1 libpam-modules-bin_1.5.2-9.1 libpam-runtime_1.5.2-9.1 libpam0g_1.5.2-9.1 libpcre2-8-0_10.42-4 libperl5.36_5.36.0-9 libpipeline1_1.5.7-1 libpkgconf3_1.8.1-1 libproc2-0_2:4.0.4-2 libpsl5_0.21.2-1+b1 libpython3-stdlib_3.11.4-5 libpython3.11-minimal_3.11.6-3 libpython3.11-stdlib_3.11.6-3 libreadline8_8.2-1.3 librhash0_1.4.3-3 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.28+dfsg1-3 libsasl2-modules-db_2.1.28+dfsg1-3 libseccomp2_2.5.4-1+rpi1+b1 libselinux1_3.5-1 libsemanage-common_3.5-1 libsemanage2_3.5-1 libsepol2_3.5-1 libsframe1_2.41-6+rpi1 libsimde-dev_0.7.6-1 libsmartcols1_2.39.2-5 libsparsehash-dev_2.0.3-2 libspdlog-dev_1:1.10.0+ds-1 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pinentry-curses_1.2.1-1 pkg-config_1.8.1-1 pkgconf_1.8.1-1 pkgconf-bin_1.8.1-1 po-debconf_1.0.21+nmu1 procps_2:4.0.4-2 python3_3.11.4-5 python3-importlib-metadata_4.12.0-1 python3-markdown_3.4.4-1 python3-minimal_3.11.4-5 python3-more-itertools_10.1.0-1 python3-typing-extensions_4.7.1-2 python3-zipp_1.0.0-6 python3.11_3.11.6-3 python3.11-minimal_3.11.6-3 rapidjson-dev_1.1.0+dfsg2-7.1 raspbian-archive-keyring_20120528.2 readline-common_8.2-1.3 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-1 sensible-utils_0.0.20 sysvinit-utils_3.08-3 tar_1.34+dfsg-1.2 tzdata_2023c-10 usr-is-merged_37 util-linux_2.39.2-5 xz-utils_5.4.4-0.1 zlib1g_1:1.2.13.dfsg-3 zlib1g-dev_1:1.2.13.dfsg-3
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 3.0 (quilt)
Source: rapmap
Binary: rapmap, rapmap-example-data, rapmap-dev
Architecture: any all
Version: 0.15.0+dfsg-3
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>, Michael R. Crusoe <crusoe@debian.org>
Homepage: https://github.com/COMBINE-lab/RapMap
Standards-Version: 4.6.1
Vcs-Browser: https://salsa.debian.org/med-team/rapmap
Vcs-Git: https://salsa.debian.org/med-team/rapmap.git
Testsuite: autopkgtest
Build-Depends: debhelper-compat (= 13), cmake, zlib1g-dev, libdivsufsort-dev, libcereal-dev, libjellyfish-2.0-dev, libjemalloc-dev, libsimde-dev, libsparsehash-dev, libspdlog-dev, libtclap-dev, pkg-config, python3-markdown, python3
Package-List:
rapmap deb science optional arch=any
rapmap-dev deb science optional arch=all
rapmap-example-data deb science optional arch=all
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gpgv: Signature made Sat Nov 26 05:29:24 2022 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./rapmap_0.15.0+dfsg-3.dsc: no acceptable signature found
dpkg-source: info: extracting rapmap in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking rapmap_0.15.0+dfsg.orig.tar.xz
dpkg-source: info: unpacking rapmap_0.15.0+dfsg-3.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying use-debian-libs.patch
dpkg-source: info: applying use_shared_libs.patch
dpkg-source: info: applying avoid_privacy_breach.patch
dpkg-source: info: applying spelling
dpkg-source: info: applying portable_pause
dpkg-source: info: applying no_gomp_needed
dpkg-source: info: applying simde
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
LANG=en_GB.UTF-8
LC_ALL=C.UTF-8
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=trixie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=trixie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=124
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=trixie-staging-armhf-sbuild-4abf606d-095d-4c66-bb2b-f91ec5333ccb
SCHROOT_UID=114
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
Command: dpkg-buildpackage --sanitize-env -us -uc -mRaspbian pi5 test autobuilder <root@raspbian.org> -B -rfakeroot
dpkg-buildpackage: info: source package rapmap
dpkg-buildpackage: info: source version 0.15.0+dfsg-3
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean
debian/rules override_dh_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_clean README.html sample_data/sample_quasi_index/ sample_data/sample_quasi_index_ph/ sample_data/sample_quasi_map.sam sample_data/sample_quasi_map_ph.sam
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules binary-arch
dh binary-arch
dh_update_autotools_config -a
dh_autoreconf -a
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_configure -- -DJELLYFISH_ROOT=/usr -DNO_NATIVE_ARCH=true
cd obj-arm-linux-gnueabihf && DEB_PYTHON_INSTALL_LAYOUT=deb cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf -DJELLYFISH_ROOT=/usr -DNO_NATIVE_ARCH=true ..
CC: gcc
CC version:
-- The C compiler identification is GNU 13.2.0
-- The CXX compiler identification is GNU 13.2.0
-- 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
-- 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
version: 0.6.0
-- DISABLING NATIVE ARCH.
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE
Making Default build type
-- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.13")
-- Found Cereal: /usr/include (Required is at least version "1.2.2")
-- Cereal found (include: /usr/include)
-- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1")
-- Found Jemalloc: /usr/lib/arm-linux-gnueabihf/libjemalloc.so (found version "5.3.0-0-g54eaed1d8b56b1aa528be3bdd1877e59c56fa90c")
Found Jemalloc library --- using this memory allocator
CPACK_SOURCE_IGNORE_FILES = .git/
CMAKE_SYSTEM_PROCESSOR: aarch64
-- Configuring done (1.8s)
-- Generating done (0.0s)
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_EXPORT_NO_PACKAGE_REGISTRY
CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY
CMAKE_INSTALL_LIBDIR
CMAKE_INSTALL_LOCALSTATEDIR
CMAKE_INSTALL_RUNSTATEDIR
CMAKE_INSTALL_SYSCONFDIR
FETCHCONTENT_FULLY_DISCONNECTED
JELLYFISH_ROOT
-- Build files have been written to: /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_build
cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1
make[2]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<PKGBUILDDIR>> -B/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/CMakeFiles /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/ksw2pp_sse2.dir/build.make src/CMakeFiles/ksw2pp_sse2.dir/depend
make -f src/CMakeFiles/ksw2pp_basic.dir/build.make src/CMakeFiles/ksw2pp_basic.dir/depend
make[4]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/ksw2pp_sse2.dir/DependInfo.cmake "--color="
make[4]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/ksw2pp_basic.dir/DependInfo.cmake "--color="
make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make -f src/CMakeFiles/ksw2pp_basic.dir/build.make src/CMakeFiles/ksw2pp_basic.dir/build
make -f src/CMakeFiles/ksw2pp_sse2.dir/build.make src/CMakeFiles/ksw2pp_sse2.dir/build
make[4]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[4]: Entering directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
[ 15%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o
[ 15%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o
[ 15%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o
[ 15%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cc -I/<<PKGBUILDDIR>>/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o -c /<<PKGBUILDDIR>>/src/ksw2pp/kalloc.c
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cc -I/<<PKGBUILDDIR>>/include -I/<<PKGBUILDDIR>>/digestpp -I/<<PKGBUILDDIR>>/external -I/<<PKGBUILDDIR>>/external/cereal/include -I/<<PKGBUILDDIR>>/external/install/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o -MF CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o.d -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o -c /<<PKGBUILDDIR>>/src/ksw2pp/ksw2_extf2_sse.c
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cc -I/<<PKGBUILDDIR>>/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o -c /<<PKGBUILDDIR>>/src/ksw2pp/ksw2_extd.c
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cc -I/<<PKGBUILDDIR>>/include -I/<<PKGBUILDDIR>>/digestpp -I/<<PKGBUILDDIR>>/external -I/<<PKGBUILDDIR>>/external/cereal/include -I/<<PKGBUILDDIR>>/external/install/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o -MF CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o.d -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o -c /<<PKGBUILDDIR>>/src/ksw2pp/ksw2_extd2_sse.c
/<<PKGBUILDDIR>>/src/ksw2pp/kalloc.c: In function ‘morecore’:
/<<PKGBUILDDIR>>/src/ksw2pp/kalloc.c:49:47: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=]
49 | fprintf(stderr, "[morecore] %lu bytes requested but not available.\n", rnu * sizeof(size_t));
| ~~^ ~~~~~~~~~~~~~~~~~~~~
| | |
| long unsigned int size_t {aka unsigned int}
| %u
/<<PKGBUILDDIR>>/src/ksw2pp/kalloc.c: In function ‘km_stat’:
/<<PKGBUILDDIR>>/src/ksw2pp/kalloc.c:212:42: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=]
212 | fprintf(stderr, "[kr_stat] tot=%lu, free=%lu, n_block=%u, max_block=%lu, frag_len=%.3fK\n",
| ~~^
| |
| long unsigned int
| %u
213 | km->total_allocated, n_units * sizeof(size_t), n_blocks, max_block * sizeof(size_t), frag);
| ~~~~~~~~~~~~~~~~~~~
| |
| size_t {aka unsigned int}
/<<PKGBUILDDIR>>/src/ksw2pp/kalloc.c:212:52: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘unsigned int’ [-Wformat=]
212 | fprintf(stderr, "[kr_stat] tot=%lu, free=%lu, n_block=%u, max_block=%lu, frag_len=%.3fK\n",
| ~~^
| |
| long unsigned int
| %u
213 | km->total_allocated, n_units * sizeof(size_t), n_blocks, max_block * sizeof(size_t), frag);
| ~~~~~~~~~~~~~~~~~~~~~~~~
| |
| unsigned int
/<<PKGBUILDDIR>>/src/ksw2pp/kalloc.c:212:79: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 6 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=]
212 | fprintf(stderr, "[kr_stat] tot=%lu, free=%lu, n_block=%u, max_block=%lu, frag_len=%.3fK\n",
| ~~^
| |
| long unsigned int
| %u
213 | km->total_allocated, n_units * sizeof(size_t), n_blocks, max_block * sizeof(size_t), frag);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~
| |
| size_t {aka unsigned int}
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cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cc -I/<<PKGBUILDDIR>>/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o -c /<<PKGBUILDDIR>>/src/ksw2pp/ksw2_gg.c
[ 30%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cc -I/<<PKGBUILDDIR>>/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o -c /<<PKGBUILDDIR>>/src/ksw2pp/ksw2_gg2.c
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cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cc -I/<<PKGBUILDDIR>>/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o -c /<<PKGBUILDDIR>>/src/ksw2pp/ksw2_gg2_sse.c
[ 38%] Building CXX object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o -c /<<PKGBUILDDIR>>/src/ksw2pp/KSW2Aligner.cpp
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cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -P CMakeFiles/ksw2pp.dir/cmake_clean_target.cmake
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ksw2pp.dir/link.txt --verbose=1
/usr/bin/ar qc libksw2pp.a CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o
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cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<PKGBUILDDIR>> /<<PKGBUILDDIR>>/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src/CMakeFiles/rapmap.dir/DependInfo.cmake "--color="
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[ 57%] Building CXX object src/CMakeFiles/rapmap.dir/RapMapUtils.cpp.o
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[ 57%] Building CXX object src/CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o
[ 57%] Building CXX object src/CMakeFiles/rapmap.dir/RapMap.cpp.o
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/include -I/<<PKGBUILDDIR>>/digestpp -I/<<PKGBUILDDIR>>/external -I/<<PKGBUILDDIR>>/external/cereal/include -I/<<PKGBUILDDIR>>/external/install/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMap.cpp.o -MF CMakeFiles/rapmap.dir/RapMap.cpp.o.d -o CMakeFiles/rapmap.dir/RapMap.cpp.o -c /<<PKGBUILDDIR>>/src/RapMap.cpp
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/include -I/<<PKGBUILDDIR>>/digestpp -I/<<PKGBUILDDIR>>/external -I/<<PKGBUILDDIR>>/external/cereal/include -I/<<PKGBUILDDIR>>/external/install/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o -MF CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o.d -o CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o -c /<<PKGBUILDDIR>>/src/RapMapSAIndexer.cpp
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/include -I/<<PKGBUILDDIR>>/digestpp -I/<<PKGBUILDDIR>>/external -I/<<PKGBUILDDIR>>/external/cereal/include -I/<<PKGBUILDDIR>>/external/install/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMapUtils.cpp.o -MF CMakeFiles/rapmap.dir/RapMapUtils.cpp.o.d -o CMakeFiles/rapmap.dir/RapMapUtils.cpp.o -c /<<PKGBUILDDIR>>/src/RapMapUtils.cpp
cd /<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf/src && /usr/bin/c++ -I/<<PKGBUILDDIR>>/include -I/<<PKGBUILDDIR>>/digestpp -I/<<PKGBUILDDIR>>/external -I/<<PKGBUILDDIR>>/external/cereal/include -I/<<PKGBUILDDIR>>/external/install/include -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o -MF CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o.d -o CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o -c /<<PKGBUILDDIR>>/src/RapMapSAMapper.cpp
In file included from /<<PKGBUILDDIR>>/include/BooMap.hpp:4,
from /<<PKGBUILDDIR>>/src/RapMapUtils.cpp:32:
/<<PKGBUILDDIR>>/include/BooPHF.hpp: In function ‘uint64_t boomphf::fastrange64(uint64_t, uint64_t)’:
/<<PKGBUILDDIR>>/include/BooPHF.hpp:818:37: error: ‘__uint128_t’ was not declared in this scope; did you mean ‘__uint8_t’?
818 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64);
| ^~~~~~~~~~~
| __uint8_t
/<<PKGBUILDDIR>>/include/BooPHF.hpp:818:49: error: expected ‘)’ before ‘word’
818 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64);
| ~ ^~~~
| )
/<<PKGBUILDDIR>>/include/BooPHF.hpp:818:78: error: expected ‘)’ before ‘;’ token
818 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64);
| ~ ^
| )
In file included from /<<PKGBUILDDIR>>/include/zstr/zstr.hpp:16,
from /<<PKGBUILDDIR>>/src/RapMapSAMapper.cpp:62:
/<<PKGBUILDDIR>>/include/zstr/strict_fstream.hpp: In static member function ‘static void strict_fstream::detail::static_method_holder::check_peek(std::istream*, const std::string&, std::ios_base::openmode)’:
/<<PKGBUILDDIR>>/include/zstr/strict_fstream.hpp:128:39: warning: catching polymorphic type ‘class std::ios_base::failure’ by value [-Wcatch-value=]
128 | catch (std::ios_base::failure e) {}
| ^
In file included from /<<PKGBUILDDIR>>/include/BooMap.hpp:4,
from /<<PKGBUILDDIR>>/src/RapMapSAIndexer.cpp:51:
/<<PKGBUILDDIR>>/include/BooPHF.hpp: In function ‘uint64_t boomphf::fastrange64(uint64_t, uint64_t)’:
/<<PKGBUILDDIR>>/include/BooPHF.hpp:818:37: error: ‘__uint128_t’ was not declared in this scope; did you mean ‘__uint8_t’?
818 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64);
| ^~~~~~~~~~~
| __uint8_t
/<<PKGBUILDDIR>>/include/BooPHF.hpp:818:49: error: expected ‘)’ before ‘word’
818 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64);
| ~ ^~~~
| )
/<<PKGBUILDDIR>>/include/BooPHF.hpp:818:78: error: expected ‘)’ before ‘;’ token
818 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64);
| ~ ^
| )
In file included from /<<PKGBUILDDIR>>/include/BooMap.hpp:4,
from /<<PKGBUILDDIR>>/src/RapMapSAMapper.cpp:70:
/<<PKGBUILDDIR>>/include/BooPHF.hpp: In function ‘uint64_t boomphf::fastrange64(uint64_t, uint64_t)’:
/<<PKGBUILDDIR>>/include/BooPHF.hpp:818:37: error: ‘__uint128_t’ was not declared in this scope; did you mean ‘__uint8_t’?
818 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64);
| ^~~~~~~~~~~
| __uint8_t
/<<PKGBUILDDIR>>/include/BooPHF.hpp:818:49: error: expected ‘)’ before ‘word’
818 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64);
| ~ ^~~~
| )
/<<PKGBUILDDIR>>/include/BooPHF.hpp:818:78: error: expected ‘)’ before ‘;’ token
818 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64);
| ~ ^
| )
At global scope:
cc1plus: note: unrecognized command-line option ‘-Wno-unused-local-typedef’ may have been intended to silence earlier diagnostics
make[4]: *** [src/CMakeFiles/rapmap.dir/build.make:107: src/CMakeFiles/rapmap.dir/RapMapUtils.cpp.o] Error 1
make[4]: *** Waiting for unfinished jobs....
At global scope:
cc1plus: note: unrecognized command-line option ‘-Wno-unused-local-typedef’ may have been intended to silence earlier diagnostics
At global scope:
cc1plus: note: unrecognized command-line option ‘-Wno-unused-local-typedef’ may have been intended to silence earlier diagnostics
make[4]: *** [src/CMakeFiles/rapmap.dir/build.make:121: src/CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o] Error 1
make[4]: *** [src/CMakeFiles/rapmap.dir/build.make:93: src/CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o] Error 1
make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[3]: *** [CMakeFiles/Makefile2:134: src/CMakeFiles/rapmap.dir/all] Error 2
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
make[2]: *** [Makefile:169: all] Error 2
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-arm-linux-gnueabihf'
dh_auto_build: error: cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 returned exit code 2
make[1]: *** [debian/rules:22: override_dh_auto_build] Error 25
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:16: binary-arch] Error 2
dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2023-11-06T20:02:32Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build Type: any
Build-Space: 8872
Build-Time: 11
Distribution: trixie-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 51
Job: rapmap_0.15.0+dfsg-3
Machine Architecture: arm64
Package: rapmap
Package-Time: 72
Source-Version: 0.15.0+dfsg-3
Space: 8872
Status: attempted
Version: 0.15.0+dfsg-3
--------------------------------------------------------------------------------
Finished at 2023-11-06T20:02:32Z
Build needed 00:01:12, 8872k disk space