spades →
3.13.1+dfsg-2 →
armhf → 2022-04-14 12:45:50
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-02
+==============================================================================+
| spades 3.13.1+dfsg-2 (armhf) Thu, 14 Apr 2022 12:28:51 +0000 |
+==============================================================================+
Package: spades
Version: 3.13.1+dfsg-2
Source Version: 3.13.1+dfsg-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-93b48a95-86d4-4699-a9bb-ba945f44581e' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private bookworm-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private bookworm-staging/main Sources [12.9 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf Packages [13.9 MB]
Fetched 26.8 MB in 29s (919 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
W: http://172.17.4.1/private/dists/bookworm-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: 'spades' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/spades.git
Please use:
git clone https://salsa.debian.org/med-team/spades.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 3230 kB of source archives.
Get:1 http://172.17.4.1/private bookworm-staging/main spades 3.13.1+dfsg-2 (dsc) [2381 B]
Get:2 http://172.17.4.1/private bookworm-staging/main spades 3.13.1+dfsg-2 (tar) [3203 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main spades 3.13.1+dfsg-2 (diff) [25.2 kB]
Fetched 3230 kB in 0s (8130 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/spades-lGGzAU/spades-3.13.1+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/spades-lGGzAU' 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-g2yjI9/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-g2yjI9/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-g2yjI9/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-g2yjI9/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-g2yjI9/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-g2yjI9/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-g2yjI9/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-g2yjI9/apt_archive ./ Packages [432 B]
Fetched 2108 B in 1s (2638 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
netbase sensible-utils
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 39 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-g2yjI9/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 0s (19.2 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12603 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), dh-python, cmake, python3-dev, zlib1g-dev, libbz2-dev, libboost-dev, libbam-dev, libbamtools-dev, libhat-trie-dev, libhts-dev, libnlopt-dev, libnlopt-cxx-dev, libssw-dev, python3-yaml, python3-joblib, asciidoctor (>= 1.5.3), bwa, libbwa-dev, lynx
Filtered Build-Depends: debhelper-compat (= 12), dh-python, cmake, python3-dev, zlib1g-dev, libbz2-dev, libboost-dev, libbam-dev, libbamtools-dev, libhat-trie-dev, libhts-dev, libnlopt-dev, libnlopt-cxx-dev, libssw-dev, python3-yaml, python3-joblib, asciidoctor (>= 1.5.3), bwa, libbwa-dev, lynx
dpkg-deb: building package 'sbuild-build-depends-spades-dummy' in '/<<BUILDDIR>>/resolver-g2yjI9/apt_archive/sbuild-build-depends-spades-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-spades-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-g2yjI9/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-g2yjI9/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-g2yjI9/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-g2yjI9/apt_archive ./ Sources [601 B]
Get:5 copy:/<<BUILDDIR>>/resolver-g2yjI9/apt_archive ./ Packages [680 B]
Fetched 2614 B in 1s (3504 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install spades 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:
asciidoctor autoconf automake autopoint autotools-dev bsdextrautils bwa
ca-certificates cmake cmake-data debhelper dh-autoreconf dh-elpa-helper
dh-python dh-strip-nondeterminism dwz emacsen-common file gettext
gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13
libbam-dev libbamtools-dev libbamtools2.5.1 libboost-dev libboost1.74-dev
libbrotli1 libbsd0 libbwa-dev libbz2-dev libcurl3-gnutls libcurl4
libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 libedit2
libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl
libhat-trie-dev libhat-trie0 libhts-dev libhts3 libhtscodecs2 libicu67
libjs-jquery libjs-sphinxdoc libjs-underscore libjsoncpp25 libldap-2.5-0
liblzma-dev libmagic-mgc libmagic1 libmd0 libmpdec3 libncurses6
libnghttp2-14 libnlopt-cxx-dev libnlopt-cxx0 libnlopt-dev libnlopt0
libpipeline1 libprocps8 libpsl5 libpython3-dev libpython3-stdlib
libpython3.9 libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib
librhash0 librtmp1 libruby3.0 libsigsegv2 libssh2-1 libssw-dev libssw0
libsub-override-perl libtool libuchardet0 libuv1 libxml2 libyaml-0-2 lynx
lynx-common m4 man-db media-types openssl po-debconf procps python3
python3-dev python3-distutils python3-joblib python3-lib2to3 python3-minimal
python3-pkg-resources python3-yaml python3.9 python3.9-dev python3.9-minimal
rake ruby ruby-asciidoctor ruby-net-telnet ruby-rubygems ruby-xmlrpc ruby3.0
rubygems-integration zlib1g zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc samtools cmake-doc ninja-build
cmake-format dh-make flit python3-build python3-tomli python3-installer
gettext-doc libasprintf-dev libgettextpo-dev groff lrzip libbamtools-doc
libboost-doc libboost1.74-doc libboost-atomic1.74-dev
libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev
libboost-contract1.74-dev libboost-coroutine1.74-dev
libboost-date-time1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev
libboost-filesystem1.74-dev libboost-graph1.74-dev
libboost-graph-parallel1.74-dev libboost-iostreams1.74-dev
libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev
libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev
libboost-program-options1.74-dev libboost-python1.74-dev
libboost-random1.74-dev libboost-regex1.74-dev
libboost-serialization1.74-dev libboost-stacktrace1.74-dev
libboost-system1.74-dev libboost-test1.74-dev libboost-thread1.74-dev
libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev
libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev
libcurl4-doc libgnutls28-dev libidn11-dev libkrb5-dev libldap2-dev
librtmp-dev libssh2-1-dev pkg-config liblzma-doc libtool-doc gfortran
| fortran95-compiler gcj-jdk m4-doc apparmor less libmail-box-perl
python3-doc python3-tk python3-venv python3-setuptools python3.9-venv
python3.9-doc binfmt-support ri ruby-dev bundler
Recommended packages:
bzip2-doc libarchive-cpio-perl javascript-common libldap-common libgpm2
publicsuffix libltdl-dev mime-support libmail-sendmail-perl psmisc
python3-numpy python3-pytest python3-simplejson python3-psutil zip
fonts-lato
The following NEW packages will be installed:
asciidoctor autoconf automake autopoint autotools-dev bsdextrautils bwa
ca-certificates cmake cmake-data debhelper dh-autoreconf dh-elpa-helper
dh-python dh-strip-nondeterminism dwz emacsen-common file gettext
gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13
libbam-dev libbamtools-dev libbamtools2.5.1 libboost-dev libboost1.74-dev
libbrotli1 libbsd0 libbwa-dev libbz2-dev libcurl3-gnutls libcurl4
libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 libedit2
libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl
libhat-trie-dev libhat-trie0 libhts-dev libhts3 libhtscodecs2 libicu67
libjs-jquery libjs-sphinxdoc libjs-underscore libjsoncpp25 libldap-2.5-0
liblzma-dev libmagic-mgc libmagic1 libmd0 libmpdec3 libncurses6
libnghttp2-14 libnlopt-cxx-dev libnlopt-cxx0 libnlopt-dev libnlopt0
libpipeline1 libprocps8 libpsl5 libpython3-dev libpython3-stdlib
libpython3.9 libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib
librhash0 librtmp1 libruby3.0 libsigsegv2 libssh2-1 libssw-dev libssw0
libsub-override-perl libtool libuchardet0 libuv1 libxml2 libyaml-0-2 lynx
lynx-common m4 man-db media-types openssl po-debconf procps python3
python3-dev python3-distutils python3-joblib python3-lib2to3 python3-minimal
python3-pkg-resources python3-yaml python3.9 python3.9-dev python3.9-minimal
rake ruby ruby-asciidoctor ruby-net-telnet ruby-rubygems ruby-xmlrpc ruby3.0
rubygems-integration sbuild-build-depends-spades-dummy zlib1g-dev
The following packages will be upgraded:
zlib1g
1 upgraded, 117 newly installed, 0 to remove and 38 not upgraded.
Need to get 62.7 MB of archives.
After this operation, 336 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-g2yjI9/apt_archive ./ sbuild-build-depends-spades-dummy 0.invalid.0 [968 B]
Get:2 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-minimal armhf 3.9.12-1+rpi1 [794 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf libexpat1 armhf 2.4.8-1 [84.1 kB]
Get:4 http://172.17.4.1/private bookworm-staging/main armhf zlib1g armhf 1:1.2.11.dfsg-4 [84.2 kB]
Get:5 http://172.17.4.1/private bookworm-staging/main armhf python3.9-minimal armhf 3.9.12-1+rpi1 [1595 kB]
Get:6 http://172.17.4.1/private bookworm-staging/main armhf python3-minimal armhf 3.9.8-1 [38.5 kB]
Get:7 http://172.17.4.1/private bookworm-staging/main armhf media-types all 7.1.0 [33.2 kB]
Get:8 http://172.17.4.1/private bookworm-staging/main armhf libmpdec3 armhf 2.5.1-2+rpi1 [73.5 kB]
Get:9 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-stdlib armhf 3.9.12-1+rpi1 [1611 kB]
Get:10 http://172.17.4.1/private bookworm-staging/main armhf python3.9 armhf 3.9.12-1+rpi1 [492 kB]
Get:11 http://172.17.4.1/private bookworm-staging/main armhf libpython3-stdlib armhf 3.9.8-1 [21.6 kB]
Get:12 http://172.17.4.1/private bookworm-staging/main armhf python3 armhf 3.9.8-1 [38.1 kB]
Get:13 http://172.17.4.1/private bookworm-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:14 http://172.17.4.1/private bookworm-staging/main armhf groff-base armhf 1.22.4-8 [793 kB]
Get:15 http://172.17.4.1/private bookworm-staging/main armhf bsdextrautils armhf 2.37.3-1 [136 kB]
Get:16 http://172.17.4.1/private bookworm-staging/main armhf libpipeline1 armhf 1.5.5-1 [32.9 kB]
Get:17 http://172.17.4.1/private bookworm-staging/main armhf man-db armhf 2.10.2-1 [1362 kB]
Get:18 http://172.17.4.1/private bookworm-staging/main armhf libncurses6 armhf 6.3-2 [79.6 kB]
Get:19 http://172.17.4.1/private bookworm-staging/main armhf libprocps8 armhf 2:3.3.17-7 [60.7 kB]
Get:20 http://172.17.4.1/private bookworm-staging/main armhf procps armhf 2:3.3.17-7 [475 kB]
Get:21 http://172.17.4.1/private bookworm-staging/main armhf openssl armhf 1.1.1n-1 [816 kB]
Get:22 http://172.17.4.1/private bookworm-staging/main armhf ca-certificates all 20211016 [156 kB]
Get:23 http://172.17.4.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.41-2 [295 kB]
Get:24 http://172.17.4.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.41-2 [119 kB]
Get:25 http://172.17.4.1/private bookworm-staging/main armhf file armhf 1:5.41-2 [65.8 kB]
Get:26 http://172.17.4.1/private bookworm-staging/main armhf gettext-base armhf 0.21-6 [171 kB]
Get:27 http://172.17.4.1/private bookworm-staging/main armhf rubygems-integration all 1.18 [6704 B]
Get:28 http://172.17.4.1/private bookworm-staging/main armhf rake all 13.0.6-3 [83.9 kB]
Get:29 http://172.17.4.1/private bookworm-staging/main armhf ruby-net-telnet all 0.1.1-2 [12.5 kB]
Get:30 http://172.17.4.1/private bookworm-staging/main armhf ruby-xmlrpc all 0.3.2-1 [24.3 kB]
Get:31 http://172.17.4.1/private bookworm-staging/main armhf libmd0 armhf 1.0.4-1 [28.9 kB]
Get:32 http://172.17.4.1/private bookworm-staging/main armhf libbsd0 armhf 0.11.6-1 [109 kB]
Get:33 http://172.17.4.1/private bookworm-staging/main armhf libedit2 armhf 3.1-20210910-1 [81.2 kB]
Get:34 http://172.17.4.1/private bookworm-staging/main armhf libyaml-0-2 armhf 0.2.2-1 [40.0 kB]
Get:35 http://172.17.4.1/private bookworm-staging/main armhf libruby3.0 armhf 3.0.3-1 [5073 kB]
Get:36 http://172.17.4.1/private bookworm-staging/main armhf ruby3.0 armhf 3.0.3-1 [670 kB]
Get:37 http://172.17.4.1/private bookworm-staging/main armhf ruby-rubygems all 3.3.5-2 [289 kB]
Get:38 http://172.17.4.1/private bookworm-staging/main armhf ruby armhf 1:3.0+1 [12.1 kB]
Get:39 http://172.17.4.1/private bookworm-staging/main armhf ruby-asciidoctor all 2.0.16-2 [210 kB]
Get:40 http://172.17.4.1/private bookworm-staging/main armhf asciidoctor all 2.0.16-2 [87.6 kB]
Get:41 http://172.17.4.1/private bookworm-staging/main armhf libsigsegv2 armhf 2.14-1 [36.6 kB]
Get:42 http://172.17.4.1/private bookworm-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:43 http://172.17.4.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:44 http://172.17.4.1/private bookworm-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:45 http://172.17.4.1/private bookworm-staging/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get:46 http://172.17.4.1/private bookworm-staging/main armhf autopoint all 0.21-6 [510 kB]
Get:47 http://172.17.4.1/private bookworm-staging/main armhf bwa armhf 0.7.17-7 [196 kB]
Get:48 http://172.17.4.1/private bookworm-staging/main armhf libicu67 armhf 67.1-7 [8291 kB]
Get:49 http://172.17.4.1/private bookworm-staging/main armhf libxml2 armhf 2.9.13+dfsg-1 [593 kB]
Get:50 http://172.17.4.1/private bookworm-staging/main armhf libarchive13 armhf 3.6.0-1 [306 kB]
Get:51 http://172.17.4.1/private bookworm-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:52 http://172.17.4.1/private bookworm-staging/main armhf libldap-2.5-0 armhf 2.5.11+dfsg-1+rpi1 [198 kB]
Get:53 http://172.17.4.1/private bookworm-staging/main armhf libnghttp2-14 armhf 1.43.0-1 [65.3 kB]
Get:54 http://172.17.4.1/private bookworm-staging/main armhf libpsl5 armhf 0.21.0-1.2 [56.2 kB]
Get:55 http://172.17.4.1/private bookworm-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:56 http://172.17.4.1/private bookworm-staging/main armhf libssh2-1 armhf 1.10.0-3 [161 kB]
Get:57 http://172.17.4.1/private bookworm-staging/main armhf libcurl4 armhf 7.82.0-2 [317 kB]
Get:58 http://172.17.4.1/private bookworm-staging/main armhf libjsoncpp25 armhf 1.9.5-4 [66.7 kB]
Get:59 http://172.17.4.1/private bookworm-staging/main armhf librhash0 armhf 1.4.2-1 [141 kB]
Get:60 http://172.17.4.1/private bookworm-staging/main armhf libuv1 armhf 1.44.1-2+rpi1 [124 kB]
Get:61 http://172.17.4.1/private bookworm-staging/main armhf dh-elpa-helper all 2.0.10 [11.3 kB]
Get:62 http://172.17.4.1/private bookworm-staging/main armhf emacsen-common all 3.0.4 [19.3 kB]
Get:63 http://172.17.4.1/private bookworm-staging/main armhf cmake-data all 3.23.0-1 [1935 kB]
Get:64 http://172.17.4.1/private bookworm-staging/main armhf cmake armhf 3.23.0-1 [3548 kB]
Get:65 http://172.17.4.1/private bookworm-staging/main armhf libdebhelper-perl all 13.6 [193 kB]
Get:66 http://172.17.4.1/private bookworm-staging/main armhf libtool all 2.4.7-3 [526 kB]
Get:67 http://172.17.4.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:68 http://172.17.4.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:69 http://172.17.4.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:70 http://172.17.4.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.13.0-1 [26.6 kB]
Get:71 http://172.17.4.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.13.0-1 [15.8 kB]
Get:72 http://172.17.4.1/private bookworm-staging/main armhf libelf1 armhf 0.186-1 [174 kB]
Get:73 http://172.17.4.1/private bookworm-staging/main armhf dwz armhf 0.14-1 [83.0 kB]
Get:74 http://172.17.4.1/private bookworm-staging/main armhf gettext armhf 0.21-6 [1214 kB]
Get:75 http://172.17.4.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:76 http://172.17.4.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:77 http://172.17.4.1/private bookworm-staging/main armhf debhelper all 13.6 [1054 kB]
Get:78 http://172.17.4.1/private bookworm-staging/main armhf python3-lib2to3 all 3.9.12-1 [79.9 kB]
Get:79 http://172.17.4.1/private bookworm-staging/main armhf python3-distutils all 3.9.12-1 [146 kB]
Get:80 http://172.17.4.1/private bookworm-staging/main armhf dh-python all 5.20220403 [113 kB]
Get:81 http://172.17.4.1/private bookworm-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-4 [183 kB]
Get:82 http://172.17.4.1/private bookworm-staging/main armhf libbam-dev armhf 0.1.19+dfsg-5 [106 kB]
Get:83 http://172.17.4.1/private bookworm-staging/main armhf libbamtools2.5.1 armhf 2.5.1+dfsg-10+b1 [135 kB]
Get:84 http://172.17.4.1/private bookworm-staging/main armhf libbamtools-dev armhf 2.5.1+dfsg-10+b1 [178 kB]
Get:85 http://172.17.4.1/private bookworm-staging/main armhf libboost1.74-dev armhf 1.74.0-14+b1 [9533 kB]
Get:86 http://172.17.4.1/private bookworm-staging/main armhf libboost-dev armhf 1.74.0.3+b4 [4824 B]
Get:87 http://172.17.4.1/private bookworm-staging/main armhf libbwa-dev armhf 0.7.17-7 [150 kB]
Get:88 http://172.17.4.1/private bookworm-staging/main armhf libbz2-dev armhf 1.0.8-5 [26.8 kB]
Get:89 http://172.17.4.1/private bookworm-staging/main armhf libcurl3-gnutls armhf 7.82.0-2 [313 kB]
Get:90 http://172.17.4.1/private bookworm-staging/main armhf libcurl4-gnutls-dev armhf 7.82.0-2 [389 kB]
Get:91 http://172.17.4.1/private bookworm-staging/main armhf libdeflate0 armhf 1.10-2 [55.4 kB]
Get:92 http://172.17.4.1/private bookworm-staging/main armhf libdeflate-dev armhf 1.10-2 [47.8 kB]
Get:93 http://172.17.4.1/private bookworm-staging/main armhf libexpat1-dev armhf 2.4.8-1 [137 kB]
Get:94 http://172.17.4.1/private bookworm-staging/main armhf libhat-trie0 armhf 0.1.2-2 [10.6 kB]
Get:95 http://172.17.4.1/private bookworm-staging/main armhf libhat-trie-dev armhf 0.1.2-2 [19.0 kB]
Get:96 http://172.17.4.1/private bookworm-staging/main armhf libhtscodecs2 armhf 1.2.1-1 [52.7 kB]
Get:97 http://172.17.4.1/private bookworm-staging/main armhf libhts3 armhf 1.13+ds-2 [339 kB]
Get:98 http://172.17.4.1/private bookworm-staging/main armhf liblzma-dev armhf 5.2.5-2 [219 kB]
Get:99 http://172.17.4.1/private bookworm-staging/main armhf libhts-dev armhf 1.13+ds-2 [4049 kB]
Get:100 http://172.17.4.1/private bookworm-staging/main armhf libjs-jquery all 3.6.0+dfsg+~3.5.13-1 [316 kB]
Get:101 http://172.17.4.1/private bookworm-staging/main armhf libjs-underscore all 1.13.2~dfsg-2 [116 kB]
Get:102 http://172.17.4.1/private bookworm-staging/main armhf libjs-sphinxdoc all 4.5.0-1 [142 kB]
Get:103 http://172.17.4.1/private bookworm-staging/main armhf libnlopt0 armhf 2.7.1-3 [140 kB]
Get:104 http://172.17.4.1/private bookworm-staging/main armhf libnlopt-dev armhf 2.7.1-3 [47.8 kB]
Get:105 http://172.17.4.1/private bookworm-staging/main armhf libnlopt-cxx0 armhf 2.7.1-3 [158 kB]
Get:106 http://172.17.4.1/private bookworm-staging/main armhf libnlopt-cxx-dev armhf 2.7.1-3 [14.6 kB]
Get:107 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9 armhf 3.9.12-1+rpi1 [1419 kB]
Get:108 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-dev armhf 3.9.12-1+rpi1 [3013 kB]
Get:109 http://172.17.4.1/private bookworm-staging/main armhf libpython3-dev armhf 3.9.8-1 [21.9 kB]
Get:110 http://172.17.4.1/private bookworm-staging/main armhf libssw0 armhf 1.1-13 [21.0 kB]
Get:111 http://172.17.4.1/private bookworm-staging/main armhf libssw-dev armhf 1.1-13 [24.0 kB]
Get:112 http://172.17.4.1/private bookworm-staging/main armhf lynx-common all 2.9.0dev.10-1 [1186 kB]
Get:113 http://172.17.4.1/private bookworm-staging/main armhf lynx armhf 2.9.0dev.10-1 [506 kB]
Get:114 http://172.17.4.1/private bookworm-staging/main armhf python3.9-dev armhf 3.9.12-1+rpi1 [501 kB]
Get:115 http://172.17.4.1/private bookworm-staging/main armhf python3-dev armhf 3.9.8-1 [25.3 kB]
Get:116 http://172.17.4.1/private bookworm-staging/main armhf python3-pkg-resources all 59.6.0-1.2 [196 kB]
Get:117 http://172.17.4.1/private bookworm-staging/main armhf python3-joblib all 0.17.0-4 [213 kB]
Get:118 http://172.17.4.1/private bookworm-staging/main armhf python3-yaml armhf 5.4.1-1 [118 kB]
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Setting up libhtscodecs2:armhf (1.2.1-1) ...
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Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ...
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Setting up autopoint (0.21-6) ...
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Setting up liblzma-dev:armhf (5.2.5-2) ...
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Setting up libmd0:armhf (1.0.4-1) ...
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Setting up libjs-jquery (3.6.0+dfsg+~3.5.13-1) ...
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Setting up openssl (1.1.1n-1) ...
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Setting up libdeflate-dev:armhf (1.10-2) ...
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Setting up libxml2:armhf (2.9.13+dfsg-1) ...
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Setting up libpython3.9-stdlib:armhf (3.9.12-1+rpi1) ...
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Setting up m4 (1.4.18-5) ...
Setting up libcurl3-gnutls:armhf (7.82.0-2) ...
Setting up libcurl4-gnutls-dev:armhf (7.82.0-2) ...
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up ca-certificates (20211016) ...
Updating certificates in /etc/ssl/certs...
127 added, 0 removed; done.
Setting up libnlopt-cxx-dev:armhf (2.7.1-3) ...
Setting up libpython3.9:armhf (3.9.12-1+rpi1) ...
Setting up libbamtools-dev:armhf (2.5.1+dfsg-10+b1) ...
Setting up libbam-dev (0.1.19+dfsg-5) ...
Setting up libjs-sphinxdoc (4.5.0-1) ...
Setting up autoconf (2.71-2) ...
Setting up dh-strip-nondeterminism (1.13.0-1) ...
Setting up dwz (0.14-1) ...
Setting up groff-base (1.22.4-8) ...
Setting up procps (2:3.3.17-7) ...
Setting up libcurl4:armhf (7.82.0-2) ...
Setting up lynx (2.9.0dev.10-1) ...
update-alternatives: using /usr/bin/lynx to provide /usr/bin/www-browser (www-browser) in auto mode
Setting up python3.9 (3.9.12-1+rpi1) ...
Setting up automake (1:1.16.5-1.3) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libhts3:armhf (1.13+ds-2) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libhts-dev:armhf (1.13+ds-2) ...
Setting up libpython3.9-dev:armhf (3.9.12-1+rpi1) ...
Setting up python3 (3.9.8-1) ...
Setting up rubygems-integration (1.18) ...
Setting up man-db (2.10.2-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up dh-autoreconf (20) ...
Setting up python3.9-dev (3.9.12-1+rpi1) ...
Setting up cmake (3.23.0-1) ...
Setting up python3-lib2to3 (3.9.12-1) ...
Setting up python3-pkg-resources (59.6.0-1.2) ...
Setting up python3-distutils (3.9.12-1) ...
Setting up dh-python (5.20220403) ...
Setting up libpython3-dev:armhf (3.9.8-1) ...
Setting up python3-joblib (0.17.0-4) ...
Setting up python3-yaml (5.4.1-1) ...
Setting up debhelper (13.6) ...
Setting up python3-dev (3.9.8-1) ...
Setting up libruby3.0:armhf (3.0.3-1) ...
Setting up ruby-rubygems (3.3.5-2) ...
Setting up ruby3.0 (3.0.3-1) ...
Setting up ruby (1:3.0+1) ...
Setting up ruby-asciidoctor (2.0.16-2) ...
Setting up rake (13.0.6-3) ...
Setting up asciidoctor (2.0.16-2) ...
Setting up sbuild-build-depends-spades-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.33-7+rpi1) ...
Processing triggers for ca-certificates (20211016) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.6-armmp armhf (armv7l)
Toolchain package versions: binutils_2.38-3+rpi1 dpkg-dev_1.21.2+rpi1 g++-11_11.2.0-16+rpi1 gcc-11_11.2.0-16+rpi1 libc6-dev_2.33-7+rpi1 libstdc++-11-dev_11.2.0-16+rpi1 libstdc++6_11.2.0-16+rpi1 linux-libc-dev_5.16.14-1+rpi1
Package versions: adduser_3.120 apt_2.4.3 asciidoctor_2.0.16-2 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-6 autotools-dev_20220109.1 base-files_12.2+rpi1 base-passwd_3.5.52 bash_5.1-6 binutils_2.38-3+rpi1 binutils-arm-linux-gnueabihf_2.38-3+rpi1 binutils-common_2.38-3+rpi1 bsdextrautils_2.37.3-1 bsdutils_1:2.37.3-1 build-essential_12.9 bwa_0.7.17-7 bzip2_1.0.8-5 ca-certificates_20211016 cmake_3.23.0-1 cmake-data_3.23.0-1 coreutils_8.32-4.1 cpp_4:11.2.0-2+rpi1 cpp-11_11.2.0-16+rpi1 dash_0.5.11+git20210903+057cd650a4ed-8 debconf_1.5.79 debhelper_13.6 debianutils_5.7-0.1 dh-autoreconf_20 dh-elpa-helper_2.0.10 dh-python_5.20220403 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.7-5 dirmngr_2.2.27-3 dpkg_1.21.2+rpi1 dpkg-dev_1.21.2+rpi1 dwz_0.14-1 e2fsprogs_1.46.5-2 emacsen-common_3.0.4 fakeroot_1.28-1 file_1:5.41-2 findutils_4.9.0-2 g++_4:11.2.0-2+rpi1 g++-11_11.2.0-16+rpi1 gcc_4:11.2.0-2+rpi1 gcc-11_11.2.0-16+rpi1 gcc-11-base_11.2.0-16+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_0.21-6 gettext-base_0.21-6 gnupg_2.2.27-3 gnupg-l10n_2.2.27-3 gnupg-utils_2.2.27-3+b1 gpg_2.2.27-3 gpg-agent_2.2.27-3 gpg-wks-client_2.2.27-3 gpg-wks-server_2.2.27-3 gpgconf_2.2.27-3 gpgsm_2.2.27-3 gpgv_2.2.27-3+b1 grep_3.7-1 groff-base_1.22.4-8 gzip_1.10-4 hostname_3.23 init-system-helpers_1.62 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libapt-pkg6.0_2.4.3 libarchive-zip-perl_1.68-1 libarchive13_3.6.0-1 libasan6_11.2.0-16+rpi1 libassuan0_2.5.5-1 libatomic1_11.2.0-16+rpi1 libattr1_1:2.5.1-1 libaudit-common_1:3.0.7-1 libaudit1_1:3.0.7-1+b1 libbam-dev_0.1.19+dfsg-5 libbamtools-dev_2.5.1+dfsg-10+b1 libbamtools2.5.1_2.5.1+dfsg-10+b1 libbinutils_2.38-3+rpi1 libblkid1_2.37.3-1 libboost-dev_1.74.0.3+b4 libboost1.74-dev_1.74.0-14+b1 libbrotli1_1.0.9-2+b1 libbsd0_0.11.6-1 libbwa-dev_0.7.17-7 libbz2-1.0_1.0.8-5 libbz2-dev_1.0.8-5 libc-bin_2.33-7+rpi1 libc-dev-bin_2.33-7+rpi1 libc6_2.33-7+rpi1 libc6-dev_2.33-7+rpi1 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcc1-0_11.2.0-16+rpi1 libcom-err2_1.46.5-2 libcrypt-dev_1:4.4.27-1.1 libcrypt1_1:4.4.27-1.1 libctf-nobfd0_2.38-3+rpi1 libctf0_2.38-3+rpi1 libcurl3-gnutls_7.82.0-2 libcurl4_7.82.0-2 libcurl4-gnutls-dev_7.82.0-2 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.261 libdebhelper-perl_13.6 libdeflate-dev_1.10-2 libdeflate0_1.10-2 libdpkg-perl_1.21.2+rpi1 libedit2_3.1-20210910-1 libelf1_0.186-1 libexpat1_2.4.8-1 libexpat1-dev_2.4.8-1 libext2fs2_1.46.5-2 libfakeroot_1.28-1 libffi8_3.4.2-4 libfile-stripnondeterminism-perl_1.13.0-1 libgcc-11-dev_11.2.0-16+rpi1 libgcc-s1_11.2.0-16+rpi1 libgcrypt20_1.9.4-5 libgdbm-compat4_1.23-1 libgdbm6_1.23-1 libgmp10_2:6.2.1+dfsg-3 libgnutls30_3.7.3-4 libgomp1_11.2.0-16+rpi1 libgpg-error0_1.43-3 libgssapi-krb5-2_1.19.2-2+b1 libhat-trie-dev_0.1.2-2 libhat-trie0_0.1.2-2 libhogweed6_3.7.3-1 libhts-dev_1.13+ds-2 libhts3_1.13+ds-2 libhtscodecs2_1.2.1-1 libicu67_67.1-7 libidn2-0_2.3.2-2 libisl23_0.24-2 libjs-jquery_3.6.0+dfsg+~3.5.13-1 libjs-sphinxdoc_4.5.0-1 libjs-underscore_1.13.2~dfsg-2 libjsoncpp25_1.9.5-4 libk5crypto3_1.19.2-2+b1 libkeyutils1_1.6.1-3+rpi1 libkrb5-3_1.19.2-2+b1 libkrb5support0_1.19.2-2+b1 libksba8_1.6.0-2 libldap-2.4-2_2.4.59+dfsg-1+b1 libldap-2.5-0_2.5.11+dfsg-1+rpi1 liblz4-1_1.9.3-2 liblzma-dev_5.2.5-2 liblzma5_5.2.5-2 libmagic-mgc_1:5.41-2 libmagic1_1:5.41-2 libmd0_1.0.4-1 libmount1_2.37.3-1 libmpc3_1.2.1-1 libmpdec3_2.5.1-2+rpi1 libmpfr6_4.1.0-3 libncurses6_6.3-2 libncursesw6_6.3-2 libnettle8_3.7.3-1 libnghttp2-14_1.43.0-1 libnlopt-cxx-dev_2.7.1-3 libnlopt-cxx0_2.7.1-3 libnlopt-dev_2.7.1-3 libnlopt0_2.7.1-3 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.24.0-6 libpam-modules_1.4.0-11 libpam-modules-bin_1.4.0-11 libpam-runtime_1.4.0-11 libpam0g_1.4.0-11 libpcre2-8-0_10.39-3 libpcre3_2:8.39-13 libperl5.34_5.34.0-3 libpipeline1_1.5.5-1 libprocps8_2:3.3.17-7 libpsl5_0.21.0-1.2 libpython3-dev_3.9.8-1 libpython3-stdlib_3.9.8-1 libpython3.9_3.9.12-1+rpi1 libpython3.9-dev_3.9.12-1+rpi1 libpython3.9-minimal_3.9.12-1+rpi1 libpython3.9-stdlib_3.9.12-1+rpi1 libreadline8_8.1.2-1 librhash0_1.4.2-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libruby3.0_3.0.3-1 libsasl2-2_2.1.28+dfsg-2+b1 libsasl2-modules-db_2.1.28+dfsg-2+b1 libseccomp2_2.5.3-2+rpi1 libselinux1_3.3-1 libsemanage-common_3.3-1 libsemanage2_3.3-1 libsepol1_3.1-1 libsepol2_3.3-1 libsigsegv2_2.14-1 libsmartcols1_2.37.3-1 libsqlite3-0_3.38.1-1 libss2_1.46.5-2 libssh2-1_1.10.0-3 libssl1.1_1.1.1n-1 libssw-dev_1.1-13 libssw0_1.1-13 libstdc++-11-dev_11.2.0-16+rpi1 libstdc++6_11.2.0-16+rpi1 libsub-override-perl_0.09-2 libsystemd0_250.4-1+rpi1 libtasn1-6_4.18.0-4 libtinfo6_6.3-2 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.7-3 libubsan1_11.2.0-16+rpi1 libuchardet0_0.0.7-1 libudev1_250.4-1+rpi1 libunistring2_1.0-1 libuuid1_2.37.3-1 libuv1_1.44.1-2+rpi1 libxml2_2.9.13+dfsg-1 libxxhash0_0.8.1-1 libyaml-0-2_0.2.2-1 libzstd1_1.4.9+dfsg-1+rpi1 linux-libc-dev_5.16.14-1+rpi1 login_1:4.11.1+dfsg1-2 logsave_1.46.5-2 lsb-base_11.1.0+rpi1 lynx_2.9.0dev.10-1 lynx-common_2.9.0dev.10-1 m4_1.4.18-5 make_4.3-4.1 man-db_2.10.2-1 mawk_1.3.4.20200120-3 media-types_7.1.0 mount_2.37.3-1 ncurses-base_6.3-2 ncurses-bin_6.3-2 netbase_6.3 openssl_1.1.1n-1 passwd_1:4.11.1+dfsg1-2 patch_2.7.6-7 perl_5.34.0-3 perl-base_5.34.0-3 perl-modules-5.34_5.34.0-3 pinentry-curses_1.1.0-4 po-debconf_1.0.21+nmu1 procps_2:3.3.17-7 python3_3.9.8-1 python3-dev_3.9.8-1 python3-distutils_3.9.12-1 python3-joblib_0.17.0-4 python3-lib2to3_3.9.12-1 python3-minimal_3.9.8-1 python3-pkg-resources_59.6.0-1.2 python3-yaml_5.4.1-1 python3.9_3.9.12-1+rpi1 python3.9-dev_3.9.12-1+rpi1 python3.9-minimal_3.9.12-1+rpi1 rake_13.0.6-3 raspbian-archive-keyring_20120528.2 readline-common_8.1.2-1 rpcsvc-proto_1.4.2-4 ruby_1:3.0+1 ruby-asciidoctor_2.0.16-2 ruby-net-telnet_0.1.1-2 ruby-rubygems_3.3.5-2 ruby-xmlrpc_0.3.2-1 ruby3.0_3.0.3-1 rubygems-integration_1.18 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-spades-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sysvinit-utils_3.01-1 tar_1.34+dfsg-1 tzdata_2021e-1 util-linux_2.37.3-1 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-4 zlib1g-dev_1:1.2.11.dfsg-4
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.d7ZGbk0_/trustedkeys.kbx': General error
gpgv: Signature made Fri Nov 22 09:49:38 2019 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tillea@rki.de"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify signature ./spades_3.13.1+dfsg-2.dsc
dpkg-source: info: extracting spades in /<<BUILDDIR>>/spades-3.13.1+dfsg
dpkg-source: info: unpacking spades_3.13.1+dfsg.orig.tar.xz
dpkg-source: info: unpacking spades_3.13.1+dfsg-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying 0002_use_debian_packaged_python-joblib.patch
dpkg-source: info: applying 0003_accept-system-bwa.patch
dpkg-source: info: applying 0101_cmake_ignore_removed_python-yaml.patch
dpkg-source: info: applying 0102_cmake_ignore_removed_python-joblib.patch
dpkg-source: info: applying 0103_use-debian-packaged-bwa.patch
dpkg-source: info: applying 0110_build_single_thread.patch
dpkg-source: info: applying 0114_use_debian_provided_libs.patch
dpkg-source: info: applying 0115_enable_compiler_messages.patch
dpkg-source: info: applying 0111_use_full_config_dirs.patch
dpkg-source: info: applying 0116_stable_link_order.patch
dpkg-source: info: applying 0117_build_with_debug.patch
dpkg-source: info: applying 0118_adjust_spades_home_again.patch
dpkg-source: info: applying fix-bool-cast
dpkg-source: info: applying spelling
dpkg-source: info: applying gcc7.patch
dpkg-source: info: applying python3.patch
dpkg-source: info: applying yaml_load.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-93b48a95-86d4-4699-a9bb-ba945f44581e
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package spades
dpkg-buildpackage: info: source version 3.13.1+dfsg-2
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --with python3 --sourcedirectory=assembler/src --buildsystem=cmake
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<BUILDDIR>>/spades-3.13.1+dfsg'
dh_auto_clean
rm -rf build_spades
rm -rf install_spades
rm -rf spades_test
find . -name "*.pyc" -delete
rm -rf /<<BUILDDIR>>/spades-3.13.1+dfsg/debian/man_src/*.html /<<BUILDDIR>>/spades-3.13.1+dfsg/debian/man_src/*.?
rm -rf /<<BUILDDIR>>/spades-3.13.1+dfsg/debian/man
make[1]: Leaving directory '/<<BUILDDIR>>/spades-3.13.1+dfsg'
dh_autoreconf_clean -O--sourcedirectory=assembler/src -O--buildsystem=cmake
debian/rules override_dh_clean
make[1]: Entering directory '/<<BUILDDIR>>/spades-3.13.1+dfsg'
dh_clean -X.orig
make[1]: Leaving directory '/<<BUILDDIR>>/spades-3.13.1+dfsg'
debian/rules build-arch
dh build-arch --with python3 --sourcedirectory=assembler/src --buildsystem=cmake
dh_update_autotools_config -a -O--sourcedirectory=assembler/src -O--buildsystem=cmake
dh_autoreconf -a -O--sourcedirectory=assembler/src -O--buildsystem=cmake
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<BUILDDIR>>/spades-3.13.1+dfsg'
echo "Simply use spades_compile.sh in auto_build"
Simply use spades_compile.sh in auto_build
make[1]: Leaving directory '/<<BUILDDIR>>/spades-3.13.1+dfsg'
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/spades-3.13.1+dfsg'
cd assembler && PREFIX=/<<BUILDDIR>>/spades-3.13.1+dfsg/install_spades ./spades_compile.sh
CMake Warning (dev) in CMakeLists.txt:
No project() command is present. The top-level CMakeLists.txt file must
contain a literal, direct call to the project() command. Add a line of
code such as
project(ProjectName)
near the top of the file, but after cmake_minimum_required().
CMake is pretending there is a "project(Project)" command on the first
line.
This warning is for project developers. Use -Wno-dev to suppress it.
-- The C compiler identification is GNU 11.2.0
-- The CXX compiler identification is GNU 11.2.0
-- 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
CMake Warning (dev) at cmake/options.cmake:56 (set):
implicitly converting 'INTEGER' to 'STRING' type.
Call Stack (most recent call first):
CMakeLists.txt:38 (include)
This warning is for project developers. Use -Wno-dev to suppress it.
CMake Warning (dev) at cmake/options.cmake:57 (set):
implicitly converting 'INTEGER' to 'STRING' type.
Call Stack (most recent call first):
CMakeLists.txt:38 (include)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Found OpenMP_C: -fopenmp (found version "4.5")
-- Found OpenMP_CXX: -fopenmp (found version "4.5")
-- Found OpenMP: TRUE (found version "4.5")
-- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.11")
-- Found BZip2: /usr/lib/arm-linux-gnueabihf/libbz2.so (found version "1.0.8")
-- Looking for BZ2_bzCompressInit
-- Looking for BZ2_bzCompressInit - found
CMake Warning (dev) at /usr/share/cmake-3.23/Modules/FindPackageHandleStandardArgs.cmake:438 (message):
The package name passed to `find_package_handle_standard_args` (readline)
does not match the name of the calling package (Readline). This can lead
to problems in calling code that expects `find_package` result variables
(e.g., `_FOUND`) to follow a certain pattern.
Call Stack (most recent call first):
cmake/Modules/FindReadline.cmake:32 (FIND_PACKAGE_HANDLE_STANDARD_ARGS)
cmake/deps.cmake:19 (find_package)
CMakeLists.txt:52 (include)
This warning is for project developers. Use -Wno-dev to suppress it.
-- Could NOT find readline (missing: READLINE_INCLUDE_DIR READLINE_LIBRARY)
-- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.74.0/BoostConfig.cmake (found version "1.74.0")
Making Release Configuration...
Building SPAdes from N/A, sha: N/A
-- Looking for include file features.h
-- Looking for include file features.h - found
-- Looking for include file sys/cdefs.h
-- Looking for include file sys/cdefs.h - found
-- Looking for atomic_fetchadd_long
-- Looking for atomic_fetchadd_long - not found
-- Looking for OSAtomicAdd64
-- Looking for OSAtomicAdd64 - not found
-- Looking for OSSpinLockLock
-- Looking for OSSpinLockLock - not found
-- Looking for _malloc_thread_cleanup
-- Looking for _malloc_thread_cleanup - not found
-- Looking for _pthread_mutex_init_calloc_cb,
-- Looking for _pthread_mutex_init_calloc_cb, - not found
-- Looking for sbrk
-- Looking for sbrk - found
-- Performing Test JEMALLOC_TLS_MODEL_SUPPORTED
-- Performing Test JEMALLOC_TLS_MODEL_SUPPORTED - Success
-- Looking for sys/types.h
-- Looking for sys/types.h - found
-- Looking for stdint.h
-- Looking for stdint.h - found
-- Looking for stddef.h
-- Looking for stddef.h - found
-- Check size of void*
-- Check size of void* - done
CMake Error at /<<BUILDDIR>>/spades-3.13.1+dfsg/assembler/ext/src/jemalloc/CMakeLists.txt:79 (message):
Unsupported pointer size
-- Configuring incomplete, errors occurred!
See also "/<<BUILDDIR>>/spades-3.13.1+dfsg/assembler/build_spades/CMakeFiles/CMakeOutput.log".
See also "/<<BUILDDIR>>/spades-3.13.1+dfsg/assembler/build_spades/CMakeFiles/CMakeError.log".
make[1]: *** [debian/rules:42: override_dh_auto_build] Error 1
make[1]: Leaving directory '/<<BUILDDIR>>/spades-3.13.1+dfsg'
make: *** [debian/rules:24: build-arch] Error 2
dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2022-04-14T12:45:45Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 0
Build-Time: 57
Distribution: bookworm-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 901
Job: spades_3.13.1+dfsg-2
Machine Architecture: armhf
Package: spades
Package-Time: 1014
Source-Version: 3.13.1+dfsg-2
Space: 0
Status: failed
Version: 3.13.1+dfsg-2
--------------------------------------------------------------------------------
Finished at 2022-04-14T12:45:45Z
Build needed 00:00:00, 0k disc space