maffilter →
1.3.1+dfsg-3 →
armhf → 2021-10-17 06:38:44
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on testbuildd
+==============================================================================+
| maffilter 1.3.1+dfsg-3 (armhf) Sun, 17 Oct 2021 06:17:31 +0000 |
+==============================================================================+
Package: maffilter
Version: 1.3.1+dfsg-3
Source Version: 1.3.1+dfsg-3
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-7ce78241-02ce-414c-a892-801b02f3121f' 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 29s (882 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: 'maffilter' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/maffilter.git
Please use:
git clone https://salsa.debian.org/med-team/maffilter.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 78.7 MB of source archives.
Get:1 http://172.17.0.1/private bookworm-staging/main maffilter 1.3.1+dfsg-3 (dsc) [2263 B]
Get:2 http://172.17.0.1/private bookworm-staging/main maffilter 1.3.1+dfsg-3 (tar) [78.7 MB]
Get:3 http://172.17.0.1/private bookworm-staging/main maffilter 1.3.1+dfsg-3 (diff) [4620 B]
Fetched 78.7 MB in 25s (3186 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/maffilter-zRwshl/maffilter-1.3.1+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/maffilter-zRwshl' 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-D4xAPT/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-D4xAPT/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-D4xAPT/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-D4xAPT/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-D4xAPT/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-D4xAPT/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-D4xAPT/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-D4xAPT/apt_archive ./ Packages [432 B]
Fetched 2108 B in 1s (2909 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 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-D4xAPT/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 (22.4 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 all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), cmake, texinfo, libbpp-phyl-omics-dev, libboost-iostreams-dev, zlib1g-dev, libbz2-dev
Filtered Build-Depends: debhelper-compat (= 13), cmake, texinfo, libbpp-phyl-omics-dev, libboost-iostreams-dev, zlib1g-dev, libbz2-dev
dpkg-deb: building package 'sbuild-build-depends-maffilter-dummy' in '/<<BUILDDIR>>/resolver-D4xAPT/apt_archive/sbuild-build-depends-maffilter-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-maffilter-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-D4xAPT/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-D4xAPT/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-D4xAPT/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-D4xAPT/apt_archive ./ Sources [543 B]
Get:5 copy:/<<BUILDDIR>>/resolver-D4xAPT/apt_archive ./ Packages [621 B]
Fetched 2497 B in 1s (3414 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install maffilter 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
debhelper dh-autoreconf dh-elpa-helper dh-strip-nondeterminism dwz
emacsen-common file gettext gettext-base groff-base icu-devtools
intltool-debian libarchive-zip-perl libarchive13 libboost-iostreams-dev
libboost-iostreams1.74-dev libboost-iostreams1.74.0 libboost-regex1.74-dev
libboost-regex1.74.0 libboost1.74-dev libbpp-core-dev libbpp-core4
libbpp-phyl-dev libbpp-phyl-omics-dev libbpp-phyl-omics3 libbpp-phyl12
libbpp-seq-dev libbpp-seq-omics-dev libbpp-seq-omics3 libbpp-seq12
libbrotli1 libbz2-dev libcurl4 libdebhelper-perl libelf1 libexpat1
libfile-stripnondeterminism-perl libicu-dev libicu67 libjsoncpp24
libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps8
libpsl5 librhash0 librtmp1 libsigsegv2 libssh2-1 libsub-override-perl
libtext-unidecode-perl libtool libuchardet0 libuv1 libxml-libxml-perl
libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml2 m4
man-db po-debconf procps sensible-utils tex-common texinfo ucf zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc cmake-doc ninja-build dh-make
gettext-doc libasprintf-dev libgettextpo-dev groff lrzip 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-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-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
icu-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor
less www-browser libmail-box-perl texlive-base texlive-latex-base
texlive-plain-generic texlive-fonts-recommended
Recommended packages:
curl | wget | lynx bzip2-doc ca-certificates libarchive-cpio-perl libgpm2
publicsuffix libltdl-dev libwww-perl libxml-sax-expat-perl
libmail-sendmail-perl psmisc
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils cmake cmake-data
debhelper dh-autoreconf dh-elpa-helper dh-strip-nondeterminism dwz
emacsen-common file gettext gettext-base groff-base icu-devtools
intltool-debian libarchive-zip-perl libarchive13 libboost-iostreams-dev
libboost-iostreams1.74-dev libboost-iostreams1.74.0 libboost-regex1.74-dev
libboost-regex1.74.0 libboost1.74-dev libbpp-core-dev libbpp-core4
libbpp-phyl-dev libbpp-phyl-omics-dev libbpp-phyl-omics3 libbpp-phyl12
libbpp-seq-dev libbpp-seq-omics-dev libbpp-seq-omics3 libbpp-seq12
libbrotli1 libbz2-dev libcurl4 libdebhelper-perl libelf1 libexpat1
libfile-stripnondeterminism-perl libicu-dev libicu67 libjsoncpp24
libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps8
libpsl5 librhash0 librtmp1 libsigsegv2 libssh2-1 libsub-override-perl
libtext-unidecode-perl libtool libuchardet0 libuv1 libxml-libxml-perl
libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml2 m4
man-db po-debconf procps sbuild-build-depends-maffilter-dummy sensible-utils
tex-common texinfo ucf zlib1g-dev
0 upgraded, 78 newly installed, 0 to remove and 35 not upgraded.
Need to get 55.7 MB of archives.
After this operation, 377 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-D4xAPT/apt_archive ./ sbuild-build-depends-maffilter-dummy 0.invalid.0 [908 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 sensible-utils all 0.0.17 [21.5 kB]
Get:8 http://172.17.0.1/private bookworm-staging/main armhf ucf all 3.0043 [74.0 kB]
Get:9 http://172.17.0.1/private bookworm-staging/main armhf tex-common all 6.17 [53.6 kB]
Get:10 http://172.17.0.1/private bookworm-staging/main armhf libncurses6 armhf 6.2+20201114-4 [79.7 kB]
Get:11 http://172.17.0.1/private bookworm-staging/main armhf libprocps8 armhf 2:3.3.17-5 [60.5 kB]
Get:12 http://172.17.0.1/private bookworm-staging/main armhf procps armhf 2:3.3.17-5 [475 kB]
Get:13 http://172.17.0.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB]
Get:14 http://172.17.0.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.39-3 [117 kB]
Get:15 http://172.17.0.1/private bookworm-staging/main armhf file armhf 1:5.39-3 [68.0 kB]
Get:16 http://172.17.0.1/private bookworm-staging/main armhf gettext-base armhf 0.21-4 [171 kB]
Get:17 http://172.17.0.1/private bookworm-staging/main armhf libsigsegv2 armhf 2.13-1 [34.3 kB]
Get:18 http://172.17.0.1/private bookworm-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:19 http://172.17.0.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:20 http://172.17.0.1/private bookworm-staging/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get:21 http://172.17.0.1/private bookworm-staging/main armhf automake all 1:1.16.4-2 [819 kB]
Get:22 http://172.17.0.1/private bookworm-staging/main armhf autopoint all 0.21-4 [510 kB]
Get:23 http://172.17.0.1/private bookworm-staging/main armhf libicu67 armhf 67.1-7 [8291 kB]
Get:24 http://172.17.0.1/private bookworm-staging/main armhf libxml2 armhf 2.9.12+dfsg-5 [584 kB]
Get:25 http://172.17.0.1/private bookworm-staging/main armhf libarchive13 armhf 3.4.3-2 [294 kB]
Get:26 http://172.17.0.1/private bookworm-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:27 http://172.17.0.1/private bookworm-staging/main armhf libnghttp2-14 armhf 1.43.0-1 [65.3 kB]
Get:28 http://172.17.0.1/private bookworm-staging/main armhf libpsl5 armhf 0.21.0-1.2 [56.2 kB]
Get:29 http://172.17.0.1/private bookworm-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:30 http://172.17.0.1/private bookworm-staging/main armhf libssh2-1 armhf 1.10.0-2 [161 kB]
Get:31 http://172.17.0.1/private bookworm-staging/main armhf libcurl4 armhf 7.74.0-1.3 [305 kB]
Get:32 http://172.17.0.1/private bookworm-staging/main armhf libexpat1 armhf 2.4.1-2 [80.3 kB]
Get:33 http://172.17.0.1/private bookworm-staging/main armhf libjsoncpp24 armhf 1.9.4-5 [67.4 kB]
Get:34 http://172.17.0.1/private bookworm-staging/main armhf librhash0 armhf 1.4.2-1 [141 kB]
Get:35 http://172.17.0.1/private bookworm-staging/main armhf libuv1 armhf 1.42.0-1 [121 kB]
Get:36 http://172.17.0.1/private bookworm-staging/main armhf dh-elpa-helper all 2.0.9 [11.2 kB]
Get:37 http://172.17.0.1/private bookworm-staging/main armhf emacsen-common all 3.0.4 [19.3 kB]
Get:38 http://172.17.0.1/private bookworm-staging/main armhf cmake-data all 3.21.3-4 [1878 kB]
Get:39 http://172.17.0.1/private bookworm-staging/main armhf cmake armhf 3.21.3-4 [3468 kB]
Get:40 http://172.17.0.1/private bookworm-staging/main armhf libdebhelper-perl all 13.5.2 [192 kB]
Get:41 http://172.17.0.1/private bookworm-staging/main armhf libtool all 2.4.6-15 [513 kB]
Get:42 http://172.17.0.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:43 http://172.17.0.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:44 http://172.17.0.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:45 http://172.17.0.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB]
Get:46 http://172.17.0.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.12.0-1 [15.4 kB]
Get:47 http://172.17.0.1/private bookworm-staging/main armhf libelf1 armhf 0.185-2 [168 kB]
Get:48 http://172.17.0.1/private bookworm-staging/main armhf dwz armhf 0.14-1 [83.0 kB]
Get:49 http://172.17.0.1/private bookworm-staging/main armhf gettext armhf 0.21-4 [1215 kB]
Get:50 http://172.17.0.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:51 http://172.17.0.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:52 http://172.17.0.1/private bookworm-staging/main armhf debhelper all 13.5.2 [1056 kB]
Get:53 http://172.17.0.1/private bookworm-staging/main armhf icu-devtools armhf 67.1-7 [172 kB]
Get:54 http://172.17.0.1/private bookworm-staging/main armhf libboost1.74-dev armhf 1.74.0-9 [9534 kB]
Get:55 http://172.17.0.1/private bookworm-staging/main armhf libboost-regex1.74.0 armhf 1.74.0-9 [448 kB]
Get:56 http://172.17.0.1/private bookworm-staging/main armhf libicu-dev armhf 67.1-7 [9228 kB]
Get:57 http://172.17.0.1/private bookworm-staging/main armhf libboost-regex1.74-dev armhf 1.74.0-9 [553 kB]
Get:58 http://172.17.0.1/private bookworm-staging/main armhf libboost-iostreams1.74.0 armhf 1.74.0-9 [260 kB]
Get:59 http://172.17.0.1/private bookworm-staging/main armhf libboost-iostreams1.74-dev armhf 1.74.0-9 [269 kB]
Get:60 http://172.17.0.1/private bookworm-staging/main armhf libboost-iostreams-dev armhf 1.74.0.3+b1 [4588 B]
Get:61 http://172.17.0.1/private bookworm-staging/main armhf libbpp-core4 armhf 2.4.1-6 [478 kB]
Get:62 http://172.17.0.1/private bookworm-staging/main armhf libbpp-core-dev armhf 2.4.1-6 [881 kB]
Get:63 http://172.17.0.1/private bookworm-staging/main armhf libbpp-seq12 armhf 2.4.1-5 [416 kB]
Get:64 http://172.17.0.1/private bookworm-staging/main armhf libbpp-phyl12 armhf 2.4.1-5 [1327 kB]
Get:65 http://172.17.0.1/private bookworm-staging/main armhf libbpp-seq-dev armhf 2.4.1-5 [710 kB]
Get:66 http://172.17.0.1/private bookworm-staging/main armhf libbpp-phyl-dev armhf 2.4.1-5 [2872 kB]
Get:67 http://172.17.0.1/private bookworm-staging/main armhf libbpp-seq-omics3 armhf 2.4.1-5 [186 kB]
Get:68 http://172.17.0.1/private bookworm-staging/main armhf libbpp-phyl-omics3 armhf 2.4.1-2 [65.1 kB]
Get:69 http://172.17.0.1/private bookworm-staging/main armhf libbpp-seq-omics-dev armhf 2.4.1-5 [378 kB]
Get:70 http://172.17.0.1/private bookworm-staging/main armhf libbpp-phyl-omics-dev armhf 2.4.1-2 [145 kB]
Get:71 http://172.17.0.1/private bookworm-staging/main armhf libbz2-dev armhf 1.0.8-4 [28.0 kB]
Get:72 http://172.17.0.1/private bookworm-staging/main armhf libtext-unidecode-perl all 1.30-1 [103 kB]
Get:73 http://172.17.0.1/private bookworm-staging/main armhf libxml-namespacesupport-perl all 1.12-1.1 [14.9 kB]
Get:74 http://172.17.0.1/private bookworm-staging/main armhf libxml-sax-base-perl all 1.09-1.1 [20.7 kB]
Get:75 http://172.17.0.1/private bookworm-staging/main armhf libxml-sax-perl all 1.02+dfsg-3 [59.4 kB]
Get:76 http://172.17.0.1/private bookworm-staging/main armhf libxml-libxml-perl armhf 2.0134+dfsg-2+b1 [318 kB]
Get:77 http://172.17.0.1/private bookworm-staging/main armhf texinfo armhf 6.8-3 [1811 kB]
Get:78 http://172.17.0.1/private bookworm-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
debconf: delaying package configuration, since apt-utils is not installed
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(Reading database ... 12484 files and directories currently installed.)
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update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10...
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Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version
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update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50...
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update-perl-sax-parsers: Updating overall Perl SAX parser modules info file...
Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version
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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.6-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 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 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 icu-devtools_67.1-7 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 libblkid1_2.37.2-1 libboost-iostreams-dev_1.74.0.3+b1 libboost-iostreams1.74-dev_1.74.0-9 libboost-iostreams1.74.0_1.74.0-9 libboost-regex1.74-dev_1.74.0-9 libboost-regex1.74.0_1.74.0-9 libboost1.74-dev_1.74.0-9 libbpp-core-dev_2.4.1-6 libbpp-core4_2.4.1-6 libbpp-phyl-dev_2.4.1-5 libbpp-phyl-omics-dev_2.4.1-2 libbpp-phyl-omics3_2.4.1-2 libbpp-phyl12_2.4.1-5 libbpp-seq-dev_2.4.1-5 libbpp-seq-omics-dev_2.4.1-5 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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 libtext-unidecode-perl_1.30-1 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 libxml-libxml-perl_2.0134+dfsg-2+b1 libxml-namespacesupport-perl_1.12-1.1 libxml-sax-base-perl_1.09-1.1 libxml-sax-perl_1.02+dfsg-3 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 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-maffilter-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sysvinit-utils_3.00-1 tar_1.34+dfsg-1 tex-common_6.17 texinfo_6.8-3 tzdata_2021a-1 ucf_3.0043 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.K2SvsNKP/trustedkeys.kbx': General error
gpgv: Signature made Tue Oct 12 07:28:28 2021 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./maffilter_1.3.1+dfsg-3.dsc
dpkg-source: info: extracting maffilter in /<<BUILDDIR>>/maffilter-1.3.1+dfsg
dpkg-source: info: unpacking maffilter_1.3.1+dfsg.orig.tar.xz
dpkg-source: info: unpacking maffilter_1.3.1+dfsg-3.debian.tar.xz
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-7ce78241-02ce-414c-a892-801b02f3121f
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package maffilter
dpkg-buildpackage: info: source version 1.3.1+dfsg-3
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean
dh_clean
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 '/<<BUILDDIR>>/maffilter-1.3.1+dfsg'
dh_auto_configure -- -DCMAKE_BUILD_TYPE=RelWithDebInfo
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=RelWithDebInfo ..
CMake Deprecation Warning at CMakeLists.txt:6 (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.
-- 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
-- Found /bin/gzip compression program, using file extension .gz
-- bpp-core 4.1.0 found:
-- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-core.a
-- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
-- includes: /usr/include
-- bpp-seq 12.0.0 found:
-- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-seq.a
-- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0
-- includes: /usr/include
-- bpp-seq-omics 3.0.0 found:
-- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-seq-omics.a
-- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-seq-omics.so.3.0.0
-- includes: /usr/include
-- bpp-phyl 12.0.0 found:
-- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-phyl.a
-- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0
-- includes: /usr/include
-- bpp-phyl-omics 3.0.0 found:
-- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-phyl-omics.a
-- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-phyl-omics.so.3.0.0
-- includes: /usr/include
-- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.74.0/BoostConfig.cmake (found suitable version "1.74.0", minimum required is "1.34.0") found components: iostreams
-- Boost libraries found here:
includes: /usr/include
dynamic libraries: Boost::iostreams
-- Library z found here:
includes: /usr/include
dynamic libraries: /usr/lib/arm-linux-gnueabihf/libz.so
-- Library bz2 found here:
includes: /usr/include
dynamic libraries: /usr/lib/arm-linux-gnueabihf/libbz2.so
-- Found /usr/bin/makeinfo: 'info' and 'html' target enabled (builds info/html doc)
-- Found texi2dvi: 'pdf' target enabled (builds pdf doc)
-- 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>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf
make[1]: Leaving directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg'
dh_auto_build -a
cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1
make[1]: Entering directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<BUILDDIR>>/maffilter-1.3.1+dfsg -B/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/CMakeFiles /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
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make -f MafFilter/CMakeFiles/maffilter.dir/build.make MafFilter/CMakeFiles/maffilter.dir/depend
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make[3]: Entering directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/maffilter-1.3.1+dfsg /<<BUILDDIR>>/maffilter-1.3.1+dfsg/doc /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/doc /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/doc/CMakeFiles/info.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/maffilter-1.3.1+dfsg /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/MafFilter /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/MafFilter/CMakeFiles/maffilter.dir/DependInfo.cmake --color=
make[3]: Entering directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
cd /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<<BUILDDIR>>/maffilter-1.3.1+dfsg /<<BUILDDIR>>/maffilter-1.3.1+dfsg/man /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/man /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/man/CMakeFiles/man.dir/DependInfo.cmake --color=
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make -f doc/CMakeFiles/info.dir/build.make doc/CMakeFiles/info.dir/build
make -f MafFilter/CMakeFiles/maffilter.dir/build.make MafFilter/CMakeFiles/maffilter.dir/build
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make[3]: Entering directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
make[3]: Entering directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
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cd /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/man && /bin/gzip -c -n -9 /<<BUILDDIR>>/maffilter-1.3.1+dfsg/man/maffilter.1 > /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/man/maffilter.1.gz
cd /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/MafFilter && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -std=c++11 -Wall -Weffc++ -Wshadow -O2 -g -DNDEBUG -MD -MT MafFilter/CMakeFiles/maffilter.dir/OutputAsFeaturesMafIterator.cpp.o -MF CMakeFiles/maffilter.dir/OutputAsFeaturesMafIterator.cpp.o.d -o CMakeFiles/maffilter.dir/OutputAsFeaturesMafIterator.cpp.o -c /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/OutputAsFeaturesMafIterator.cpp
cd /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/doc && /usr/bin/makeinfo --no-split -o /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/doc/maffilter.info /<<BUILDDIR>>/maffilter-1.3.1+dfsg/doc/maffilter.texi
cd /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/MafFilter && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -std=c++11 -Wall -Weffc++ -Wshadow -O2 -g -DNDEBUG -MD -MT MafFilter/CMakeFiles/maffilter.dir/MafFilter.cpp.o -MF CMakeFiles/maffilter.dir/MafFilter.cpp.o.d -o CMakeFiles/maffilter.dir/MafFilter.cpp.o -c /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/MafFilter.cpp
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cd /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/doc && /bin/gzip -c -n -9 /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/doc/maffilter.info > /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/doc/maffilter.info.gz
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[ 75%] Built target info
[ 87%] Building CXX object MafFilter/CMakeFiles/maffilter.dir/TreeBuildingSystemCallMafIterator.cpp.o
cd /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/MafFilter && /usr/bin/c++ -DBOOST_ALL_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -std=c++11 -Wall -Weffc++ -Wshadow -O2 -g -DNDEBUG -MD -MT MafFilter/CMakeFiles/maffilter.dir/TreeBuildingSystemCallMafIterator.cpp.o -MF CMakeFiles/maffilter.dir/TreeBuildingSystemCallMafIterator.cpp.o.d -o CMakeFiles/maffilter.dir/TreeBuildingSystemCallMafIterator.cpp.o -c /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/TreeBuildingSystemCallMafIterator.cpp
In file included from /usr/include/c++/10/vector:72,
from /usr/include/Bpp/Text/TextTools.h:49,
from /usr/include/Bpp/Numeric/Range.h:43,
from /usr/include/Bpp/Seq/Feature/SequenceFeature.h:51,
from /usr/include/Bpp/Seq/Io/Maf/MafSequence.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafBlock.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/TreeBuildingSystemCallMafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/TreeBuildingSystemCallMafIterator.cpp:40:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from /usr/include/Bpp/Text/TextTools.h:49,
from /usr/include/Bpp/Numeric/Range.h:43,
from /usr/include/Bpp/Seq/Feature/SequenceFeature.h:51,
from /usr/include/Bpp/Seq/Io/Maf/MafSequence.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafBlock.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/TreeBuildingSystemCallMafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/TreeBuildingSystemCallMafIterator.cpp:40:
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<double, std::allocator<double> > bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/stl_algo.h:61,
from /usr/include/c++/10/algorithm:62,
from /usr/include/Bpp/Seq/Feature/SequenceFeature.h:47,
from /usr/include/Bpp/Seq/Io/Maf/MafSequence.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafBlock.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/OutputAsFeaturesMafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/MafFilter.cpp:47:
/usr/include/c++/10/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/10/bits/stl_heap.h:223:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/10/algorithm:62,
from /usr/include/Bpp/Seq/Feature/SequenceFeature.h:47,
from /usr/include/Bpp/Seq/Io/Maf/MafSequence.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafBlock.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/OutputAsFeaturesMafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/MafFilter.cpp:47:
/usr/include/c++/10/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/10/bits/stl_algo.h:1844:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1844 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1844:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algo.h:1844:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/10/bits/stl_algo.h:1950:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1950 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1950:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algo.h:1964:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1964 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from /usr/include/Bpp/Text/TextTools.h:49,
from /usr/include/Bpp/Numeric/Range.h:43,
from /usr/include/Bpp/Seq/Feature/SequenceFeature.h:51,
from /usr/include/Bpp/Seq/Io/Maf/MafSequence.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafBlock.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/OutputAsFeaturesMafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/MafFilter.cpp:47:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double, std::allocator<double> >::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from /usr/include/Bpp/Text/TextTools.h:49,
from /usr/include/Bpp/Numeric/Range.h:43,
from /usr/include/Bpp/Seq/Feature/SequenceFeature.h:51,
from /usr/include/Bpp/Seq/Io/Maf/MafSequence.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafBlock.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/OutputAsFeaturesMafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/MafFilter.cpp:47:
/usr/include/c++/10/bits/stl_vector.h: In member function 'std::vector<double, std::allocator<double> > bpp::TreeTemplate<N>::getBranchLengths() [with N = bpp::Node]':
/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/10/algorithm:62,
from /usr/include/Bpp/Seq/Feature/SequenceFeature.h:47,
from /usr/include/Bpp/Seq/Io/Maf/MafSequence.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafBlock.h:43,
from /usr/include/Bpp/Seq/Io/Maf/MafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/OutputAsFeaturesMafIterator.h:43,
from /<<BUILDDIR>>/maffilter-1.3.1+dfsg/MafFilter/MafFilter.cpp:47:
/usr/include/c++/10/bits/stl_algo.h: In function 'int main(int, char**)':
/usr/include/c++/10/bits/stl_algo.h:1979:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1979 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1980 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1981 | __comp);
| ~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1891:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1891 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1896:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >' changed in GCC 7.1
1896 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
[100%] Linking CXX executable maffilter
cd /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/MafFilter && /usr/bin/cmake -E cmake_link_script CMakeFiles/maffilter.dir/link.txt --verbose=1
/usr/bin/c++ -std=c++11 -Wall -Weffc++ -Wshadow -O2 -g -DNDEBUG -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/maffilter.dir/MafFilter.cpp.o CMakeFiles/maffilter.dir/OutputAsFeaturesMafIterator.cpp.o CMakeFiles/maffilter.dir/SystemCallMafIterator.cpp.o CMakeFiles/maffilter.dir/TreeBuildingSystemCallMafIterator.cpp.o -o maffilter /usr/lib/arm-linux-gnueabihf/libbpp-phyl-omics.so.3.0.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.74.0 -lz -lbz2 /usr/lib/arm-linux-gnueabihf/libbpp-seq-omics.so.3.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0
make[3]: Leaving directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
[100%] Built target maffilter
make[2]: Leaving directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
/usr/bin/cmake -E cmake_progress_start /<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf/CMakeFiles 0
make[1]: Leaving directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
dh_auto_test -a
create-stamp debian/debhelper-build-stamp
dh_prep -a
dh_auto_install -a
cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/<<BUILDDIR>>/maffilter-1.3.1\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf'
/usr/bin/cmake -S/<<BUILDDIR>>/maffilter-1.3.1+dfsg -B/<<BUILDDIR>>/maffilter-1.3.1+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0
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Install the project...
/usr/bin/cmake -P cmake_install.cmake
-- Install configuration: "RelWithDebInfo"
-- Installing: /<<BUILDDIR>>/maffilter-1.3.1+dfsg/debian/tmp/usr/bin/maffilter
-- Installing: /<<BUILDDIR>>/maffilter-1.3.1+dfsg/debian/tmp/usr/share/info/maffilter.info.gz
-- Installing: /<<BUILDDIR>>/maffilter-1.3.1+dfsg/debian/tmp/usr/share/man/man1/maffilter.1.gz
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dh_missing -a
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dh_installdeb -a
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dpkg-deb: building package 'maffilter' in '../maffilter_1.3.1+dfsg-3_armhf.deb'.
dpkg-genbuildinfo --build=any
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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 2021-10-17T06:38:37Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
maffilter_1.3.1+dfsg-3_armhf.changes:
-------------------------------------
Format: 1.8
Date: Tue, 12 Oct 2021 09:00:57 +0200
Source: maffilter
Binary: maffilter maffilter-dbgsym
Architecture: armhf
Version: 1.3.1+dfsg-3
Distribution: bookworm-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
maffilter - process genome alignment in the Multiple Alignment Format
Changes:
maffilter (1.3.1+dfsg-3) unstable; urgency=medium
.
* Fix watchfile to detect new versions on github
* Standards-Version: 4.6.0 (routine-update)
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Files:
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+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
maffilter-dbgsym_1.3.1+dfsg-3_armhf.deb
---------------------------------------
new Debian package, version 2.0.
size 3371580 bytes: control archive=540 bytes.
389 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: maffilter-dbgsym
Source: maffilter
Version: 1.3.1+dfsg-3
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 3571
Depends: maffilter (= 1.3.1+dfsg-3)
Section: debug
Priority: optional
Description: debug symbols for maffilter
Build-Ids: 6cbad94a2b2b2d938e0dc195e3038894f0700995
drwxr-xr-x root/root 0 2021-10-12 07:00 ./
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/lib/
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/lib/debug/
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/lib/debug/.build-id/6c/
-rw-r--r-- root/root 3645628 2021-10-12 07:00 ./usr/lib/debug/.build-id/6c/bad94a2b2b2d938e0dc195e3038894f0700995.debug
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/share/
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/share/doc/
lrwxrwxrwx root/root 0 2021-10-12 07:00 ./usr/share/doc/maffilter-dbgsym -> maffilter
maffilter_1.3.1+dfsg-3_armhf.deb
--------------------------------
new Debian package, version 2.0.
size 216020 bytes: control archive=2956 bytes.
1342 bytes, 25 lines control
5802 bytes, 72 lines md5sums
Package: maffilter
Version: 1.3.1+dfsg-3
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1107
Depends: libboost-iostreams1.74.0 (>= 1.74.0), libbpp-core4 (>= 2.4.1), libbpp-phyl-omics3 (>= 2.4.1), libbpp-phyl12 (>= 2.4.1), libbpp-seq-omics3 (>= 2.4.1), libbpp-seq12 (>= 2.4.1), libc6 (>= 2.4), libgcc-s1 (>= 3.5), libstdc++6 (>= 5.2)
Suggests: maffilter-examples
Section: science
Priority: optional
Homepage: https://jydu.github.io/maffilter/
Description: process genome alignment in the Multiple Alignment Format
MafFilter applies a series of "filters" to a MAF file, in order to
clean it, extract data and computer statistics while keeping track of
the associated meta-data such as genome coordinates and quality scores.
.
* It can process the alignment to remove low-quality / ambiguous /
masked regions.
* It can export data into a single or multiple alignment file in
format such as Fasta or Clustal.
* It can read annotation data in GFF or GTF format, and extract the
corresponding alignment.
* It can perform sliding windows calculations.
* It can reconstruct phylogeny/genealogy along the genome alignment.
* It can compute population genetics statistics, such as site
frequency spectrum, number of fixed/polymorphic sites, etc.
drwxr-xr-x root/root 0 2021-10-12 07:00 ./
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/bin/
-rwxr-xr-x root/root 652808 2021-10-12 07:00 ./usr/bin/maffilter
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/share/
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/share/doc/
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/share/doc/maffilter/
-rw-r--r-- root/root 161 2018-08-17 13:32 ./usr/share/doc/maffilter/AUTHORS
drwxr-xr-x root/root 0 2021-10-12 07:00 ./usr/share/doc/maffilter/Manual/
-rw-r--r-- root/root 5348 2018-08-17 13:32 ./usr/share/doc/maffilter/Manual/AlnFilter.html
-rw-r--r-- root/root 5566 2018-08-17 13:32 ./usr/share/doc/maffilter/Manual/AlnFilter2.html
-rw-r--r-- root/root 2817 2018-08-17 13:32 ./usr/share/doc/maffilter/Manual/AlnScore.html
-rw-r--r-- root/root 2644 2018-08-17 13:32 ./usr/share/doc/maffilter/Manual/Analyzing.html
-rw-r--r-- root/root 3419 2018-08-17 13:32 ./usr/share/doc/maffilter/Manual/BlockCounts.html
-rw-r--r-- root/root 2823 2018-08-17 13:32 ./usr/share/doc/maffilter/Manual/BlockLength.html
-rw-r--r-- root/root 2807 2018-08-17 13:32 ./usr/share/doc/maffilter/Manual/BlockSize.html
-rw-r--r-- root/root 2660 2018-08-17 13:32 ./usr/share/doc/maffilter/Manual/Cleaning.html
-rw-r--r-- root/root 3530 2018-08-17 13:32 ./usr/share/doc/maffilter/Manual/Concatenate.html
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Purging /<<BUILDDIR>>
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| Summary |
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Build Architecture: armhf
Build-Space: 147672
Build-Time: 462
Distribution: bookworm-staging
Host Architecture: armhf
Install-Time: 691
Job: maffilter_1.3.1+dfsg-3
Machine Architecture: armhf
Package: maffilter
Package-Time: 1266
Source-Version: 1.3.1+dfsg-3
Space: 147672
Status: successful
Version: 1.3.1+dfsg-3
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Finished at 2021-10-17T06:38:37Z
Build needed 00:21:06, 147672k disc space