r-bioc-edger →
3.38.4+dfsg-1 →
armhf → 2022-08-22 02:40:15
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-02
+==============================================================================+
| r-bioc-edger 3.38.4+dfsg-1 (armhf) Mon, 22 Aug 2022 02:20:36 +0000 |
+==============================================================================+
Package: r-bioc-edger
Version: 3.38.4+dfsg-1
Source Version: 3.38.4+dfsg-1
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-9b30c73b-69f2-48f1-9122-4e5259839be8' 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 [13.2 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf Packages [14.1 MB]
Fetched 27.4 MB in 10s (2717 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: 'r-bioc-edger' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/r-pkg-team/r-bioc-edger.git
Please use:
git clone https://salsa.debian.org/r-pkg-team/r-bioc-edger.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 215 kB of source archives.
Get:1 http://172.17.4.1/private bookworm-staging/main r-bioc-edger 3.38.4+dfsg-1 (dsc) [2125 B]
Get:2 http://172.17.4.1/private bookworm-staging/main r-bioc-edger 3.38.4+dfsg-1 (tar) [207 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main r-bioc-edger 3.38.4+dfsg-1 (diff) [6088 B]
Fetched 215 kB in 0s (4592 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/r-bioc-edger-DlM3i7/r-bioc-edger-3.38.4+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-edger-DlM3i7' 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-vbCYtG/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-vbCYtG/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-vbCYtG/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ Packages [431 B]
Fetched 2107 B in 0s (9372 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:
krb5-locales libpam-cap 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 8 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (73.1 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12795 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-limma (>= 3.41.5), r-cran-locfit, r-cran-rcpp
Filtered Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-limma (>= 3.41.5), r-cran-locfit, r-cran-rcpp
dpkg-deb: building package 'sbuild-build-depends-r-bioc-edger-dummy' in '/<<BUILDDIR>>/resolver-vbCYtG/apt_archive/sbuild-build-depends-r-bioc-edger-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-r-bioc-edger-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-vbCYtG/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ Sources [539 B]
Get:5 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ Packages [619 B]
Fetched 2491 B in 0s (12.3 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install r-bioc-edger 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:
krb5-locales libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils ca-certificates
dctrl-tools debhelper dh-autoreconf dh-r dh-strip-nondeterminism dwz file
fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
gfortran-12 groff-base icu-devtools intltool-debian libalgorithm-c3-perl
libarchive-zip-perl libb-hooks-endofscope-perl libb-hooks-op-check-perl
libblas-dev libblas3 libbrotli1 libbsd0 libbz2-dev libcairo2
libclass-c3-perl libclass-load-perl libclass-load-xs-perl libcurl3-gnutls
libcurl4 libdata-optlist-perl libdatrie1 libdebhelper-perl libdeflate0
libdevel-callchecker-perl libdevel-globaldestruction-perl
libdevel-overloadinfo-perl libdevel-stacktrace-perl
libdist-checkconflicts-perl libdynaloader-functions-perl libelf1
libencode-locale-perl libeval-closure-perl libexpat1
libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1
libfreetype6 libfribidi0 libgfortran-12-dev libgfortran5 libglib2.0-0
libgraphite2-3 libharfbuzz0b libhttp-date-perl libhttp-message-perl libice6
libicu-dev libicu71 libio-html-perl libjbig0 libjpeg-dev libjpeg62-turbo
libjpeg62-turbo-dev liblapack-dev liblapack3 liblerc4 liblwp-mediatypes-perl
liblzma-dev libmagic-mgc libmagic1 libmd0 libmodule-implementation-perl
libmodule-runtime-conflicts-perl libmodule-runtime-perl libmoose-perl
libmro-compat-perl libnamespace-clean-perl libncurses-dev libncurses5-dev
libncurses6 libnghttp2-14 libpackage-deprecationmanager-perl
libpackage-stash-perl libpackage-stash-xs-perl libpango-1.0-0
libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1
libparams-classify-perl libparams-util-perl libpcre16-3 libpcre2-16-0
libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpcre3-dev libpcre32-3
libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpng16-16 libpsl5
libreadline-dev libregexp-ipv6-perl librtmp1 libscalar-list-utils-perl
libsm6 libssh2-1 libssl3 libsub-exporter-perl
libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl
libsub-name-perl libsub-override-perl libswitch-perl libtcl8.6 libthai-data
libthai0 libtiff5 libtimedate-perl libtk8.6 libtool libtry-tiny-perl
libuchardet0 liburi-perl libvariable-magic-perl libwebp7 libwww-curl-perl
libwww-curl-simple-perl libx11-6 libx11-data libxau6 libxcb-render0
libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxmuu1 libxrender1
libxss1 libxt6 littler m4 man-db openssl pkg-config po-debconf r-base-core
r-base-dev r-bioc-biocgenerics r-bioc-limma r-cran-lattice r-cran-littler
r-cran-locfit r-cran-pkgkitten r-cran-rcpp ucf unzip x11-common xauth
xdg-utils zip zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc debtags dh-make
postgresql-client-common gettext-doc libasprintf-dev libgettextpo-dev
gfortran-doc gfortran-12-doc libcoarrays-dev groff liblapack-doc icu-doc
liblzma-doc ncurses-doc libscalar-number-perl readline-doc tcl8.6 tk8.6
libtool-doc gcj-jdk libbusiness-isbn-perl libwww-perl libcurl4-gnutls-dev
m4-doc apparmor less www-browser libmail-box-perl elpa-ess r-doc-info
| r-doc-pdf r-mathlib r-base-html texlive-base texlive-latex-base
texlive-plain-generic texlive-fonts-recommended texlive-fonts-extra
texlive-extra-utils texlive-latex-recommended texlive-latex-extra texinfo
r-bioc-biobase r-bioc-s4vectors r-bioc-iranges r-bioc-genomicranges
r-bioc-delayedarray r-bioc-biostrings r-bioc-rsamtools r-bioc-annotationdbi
r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-cran-biasedurn r-cran-ellipse
r-bioc-go.db r-cran-gplots r-cran-mass r-bioc-org.hs.eg.db r-cran-statmod
r-cran-getopt r-cran-interp r-cran-gam r-cran-inline
Recommended packages:
devscripts cme git-buildpackage curl | wget | lynx bzip2-doc
libclass-c3-xs-perl libdevel-lexalias-perl libarchive-cpio-perl
libglib2.0-data shared-mime-info xdg-user-dirs libclone-perl
libdevel-partialdump-perl libgpm2 libpng-tools publicsuffix libltdl-dev
libmail-sendmail-perl r-recommended r-doc-html r-cran-runit
libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils
x11-xserver-utils
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils ca-certificates
dctrl-tools debhelper dh-autoreconf dh-r dh-strip-nondeterminism dwz file
fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
gfortran-12 groff-base icu-devtools intltool-debian libalgorithm-c3-perl
libarchive-zip-perl libb-hooks-endofscope-perl libb-hooks-op-check-perl
libblas-dev libblas3 libbrotli1 libbsd0 libbz2-dev libcairo2
libclass-c3-perl libclass-load-perl libclass-load-xs-perl libcurl3-gnutls
libcurl4 libdata-optlist-perl libdatrie1 libdebhelper-perl libdeflate0
libdevel-callchecker-perl libdevel-globaldestruction-perl
libdevel-overloadinfo-perl libdevel-stacktrace-perl
libdist-checkconflicts-perl libdynaloader-functions-perl libelf1
libencode-locale-perl libeval-closure-perl libexpat1
libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1
libfreetype6 libfribidi0 libgfortran-12-dev libgfortran5 libglib2.0-0
libgraphite2-3 libharfbuzz0b libhttp-date-perl libhttp-message-perl libice6
libicu-dev libicu71 libio-html-perl libjbig0 libjpeg-dev libjpeg62-turbo
libjpeg62-turbo-dev liblapack-dev liblapack3 liblerc4 liblwp-mediatypes-perl
liblzma-dev libmagic-mgc libmagic1 libmd0 libmodule-implementation-perl
libmodule-runtime-conflicts-perl libmodule-runtime-perl libmoose-perl
libmro-compat-perl libnamespace-clean-perl libncurses-dev libncurses5-dev
libncurses6 libnghttp2-14 libpackage-deprecationmanager-perl
libpackage-stash-perl libpackage-stash-xs-perl libpango-1.0-0
libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1
libparams-classify-perl libparams-util-perl libpcre16-3 libpcre2-16-0
libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpcre3-dev libpcre32-3
libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpng16-16 libpsl5
libreadline-dev libregexp-ipv6-perl librtmp1 libscalar-list-utils-perl
libsm6 libssh2-1 libsub-exporter-perl libsub-exporter-progressive-perl
libsub-identify-perl libsub-install-perl libsub-name-perl
libsub-override-perl libswitch-perl libtcl8.6 libthai-data libthai0 libtiff5
libtimedate-perl libtk8.6 libtool libtry-tiny-perl libuchardet0 liburi-perl
libvariable-magic-perl libwebp7 libwww-curl-perl libwww-curl-simple-perl
libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6
libxext6 libxft2 libxml2 libxmuu1 libxrender1 libxss1 libxt6 littler m4
man-db openssl pkg-config po-debconf r-base-core r-base-dev
r-bioc-biocgenerics r-bioc-limma r-cran-lattice r-cran-littler r-cran-locfit
r-cran-pkgkitten r-cran-rcpp sbuild-build-depends-r-bioc-edger-dummy ucf
unzip x11-common xauth xdg-utils zip zlib1g-dev
The following packages will be upgraded:
libssl3
1 upgraded, 177 newly installed, 0 to remove and 7 not upgraded.
Need to get 141 MB of archives.
After this operation, 421 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-vbCYtG/apt_archive ./ sbuild-build-depends-r-bioc-edger-dummy 0.invalid.0 [908 B]
Get:2 http://172.17.4.1/private bookworm-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf groff-base armhf 1.22.4-8 [793 kB]
Get:4 http://172.17.4.1/private bookworm-staging/main armhf bsdextrautils armhf 2.38.1-1 [137 kB]
Get:5 http://172.17.4.1/private bookworm-staging/main armhf libpipeline1 armhf 1.5.6-2 [34.2 kB]
Get:6 http://172.17.4.1/private bookworm-staging/main armhf man-db armhf 2.10.2-1 [1362 kB]
Get:7 http://172.17.4.1/private bookworm-staging/main armhf libssl3 armhf 3.0.5-2 [1635 kB]
Get:8 http://172.17.4.1/private bookworm-staging/main armhf openssl armhf 3.0.5-2 [1372 kB]
Get:9 http://172.17.4.1/private bookworm-staging/main armhf ca-certificates all 20211016 [156 kB]
Get:10 http://172.17.4.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.41-4 [295 kB]
Get:11 http://172.17.4.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.41-4 [120 kB]
Get:12 http://172.17.4.1/private bookworm-staging/main armhf file armhf 1:5.41-4 [65.8 kB]
Get:13 http://172.17.4.1/private bookworm-staging/main armhf gettext-base armhf 0.21-8 [171 kB]
Get:14 http://172.17.4.1/private bookworm-staging/main armhf ucf all 3.0043 [74.0 kB]
Get:15 http://172.17.4.1/private bookworm-staging/main armhf m4 armhf 1.4.19-1 [260 kB]
Get:16 http://172.17.4.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:17 http://172.17.4.1/private bookworm-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:18 http://172.17.4.1/private bookworm-staging/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get:19 http://172.17.4.1/private bookworm-staging/main armhf autopoint all 0.21-8 [510 kB]
Get:20 http://172.17.4.1/private bookworm-staging/main armhf dctrl-tools armhf 2.24-3 [94.2 kB]
Get:21 http://172.17.4.1/private bookworm-staging/main armhf libdebhelper-perl all 13.9 [195 kB]
Get:22 http://172.17.4.1/private bookworm-staging/main armhf libtool all 2.4.7-4 [526 kB]
Get:23 http://172.17.4.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:24 http://172.17.4.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:25 http://172.17.4.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-3 [10.4 kB]
Get:26 http://172.17.4.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.13.0-1 [26.6 kB]
Get:27 http://172.17.4.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.13.0-1 [15.8 kB]
Get:28 http://172.17.4.1/private bookworm-staging/main armhf libelf1 armhf 0.187-1 [175 kB]
Get:29 http://172.17.4.1/private bookworm-staging/main armhf dwz armhf 0.14-1 [83.0 kB]
Get:30 http://172.17.4.1/private bookworm-staging/main armhf libicu71 armhf 71.1-3 [8855 kB]
Get:31 http://172.17.4.1/private bookworm-staging/main armhf libxml2 armhf 2.9.14+dfsg-1 [591 kB]
Get:32 http://172.17.4.1/private bookworm-staging/main armhf gettext armhf 0.21-8 [1219 kB]
Get:33 http://172.17.4.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:34 http://172.17.4.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:35 http://172.17.4.1/private bookworm-staging/main armhf debhelper all 13.9 [1070 kB]
Get:36 http://172.17.4.1/private bookworm-staging/main armhf zip armhf 3.0-12 [209 kB]
Get:37 http://172.17.4.1/private bookworm-staging/main armhf unzip armhf 6.0-27 [152 kB]
Get:38 http://172.17.4.1/private bookworm-staging/main armhf libpaper1 armhf 1.1.28 [20.5 kB]
Get:39 http://172.17.4.1/private bookworm-staging/main armhf libpaper-utils armhf 1.1.28 [17.7 kB]
Get:40 http://172.17.4.1/private bookworm-staging/main armhf xdg-utils all 1.1.3-4.1 [75.5 kB]
Get:41 http://172.17.4.1/private bookworm-staging/main armhf libblas3 armhf 3.10.1-2 [109 kB]
Get:42 http://172.17.4.1/private bookworm-staging/main armhf libexpat1 armhf 2.4.8-1 [84.1 kB]
Get:43 http://172.17.4.1/private bookworm-staging/main armhf libbrotli1 armhf 1.0.9-2+b2 [260 kB]
Get:44 http://172.17.4.1/private bookworm-staging/main armhf libpng16-16 armhf 1.6.37-5 [272 kB]
Get:45 http://172.17.4.1/private bookworm-staging/main armhf libfreetype6 armhf 2.12.1+dfsg-3 [352 kB]
Get:46 http://172.17.4.1/private bookworm-staging/main armhf fonts-dejavu-core all 2.37-2 [1069 kB]
Get:47 http://172.17.4.1/private bookworm-staging/main armhf fontconfig-config all 2.13.1-4.4 [281 kB]
Get:48 http://172.17.4.1/private bookworm-staging/main armhf libfontconfig1 armhf 2.13.1-4.4 [331 kB]
Get:49 http://172.17.4.1/private bookworm-staging/main armhf libpixman-1-0 armhf 0.40.0-1 [463 kB]
Get:50 http://172.17.4.1/private bookworm-staging/main armhf libxau6 armhf 1:1.0.9-1 [19.1 kB]
Get:51 http://172.17.4.1/private bookworm-staging/main armhf libmd0 armhf 1.0.4-2 [28.6 kB]
Get:52 http://172.17.4.1/private bookworm-staging/main armhf libbsd0 armhf 0.11.6-1 [109 kB]
Get:53 http://172.17.4.1/private bookworm-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:54 http://172.17.4.1/private bookworm-staging/main armhf libxcb1 armhf 1.15-1 [139 kB]
Get:55 http://172.17.4.1/private bookworm-staging/main armhf libx11-data all 2:1.8.1-2 [308 kB]
Get:56 http://172.17.4.1/private bookworm-staging/main armhf libx11-6 armhf 2:1.8.1-2 [704 kB]
Get:57 http://172.17.4.1/private bookworm-staging/main armhf libxcb-render0 armhf 1.15-1 [114 kB]
Get:58 http://172.17.4.1/private bookworm-staging/main armhf libxcb-shm0 armhf 1.15-1 [106 kB]
Get:59 http://172.17.4.1/private bookworm-staging/main armhf libxext6 armhf 2:1.3.4-1 [48.0 kB]
Get:60 http://172.17.4.1/private bookworm-staging/main armhf libxrender1 armhf 1:0.9.10-1.1 [30.0 kB]
Get:61 http://172.17.4.1/private bookworm-staging/main armhf libcairo2 armhf 1.16.0-6 [496 kB]
Get:62 http://172.17.4.1/private bookworm-staging/main armhf libnghttp2-14 armhf 1.48.0-1 [72.1 kB]
Get:63 http://172.17.4.1/private bookworm-staging/main armhf libpsl5 armhf 0.21.0-1.2 [56.2 kB]
Get:64 http://172.17.4.1/private bookworm-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:65 http://172.17.4.1/private bookworm-staging/main armhf libssh2-1 armhf 1.10.0-3+b1 [161 kB]
Get:66 http://172.17.4.1/private bookworm-staging/main armhf libcurl4 armhf 7.84.0-2 [321 kB]
Get:67 http://172.17.4.1/private bookworm-staging/main armhf libglib2.0-0 armhf 2.72.3-1 [1233 kB]
Get:68 http://172.17.4.1/private bookworm-staging/main armhf libjpeg62-turbo armhf 1:2.1.2-1 [144 kB]
Get:69 http://172.17.4.1/private bookworm-staging/main armhf libgfortran5 armhf 12.1.0-7+rpi1 [238 kB]
Get:70 http://172.17.4.1/private bookworm-staging/main armhf liblapack3 armhf 3.10.1-2 [1587 kB]
Get:71 http://172.17.4.1/private bookworm-staging/main armhf fontconfig armhf 2.13.1-4.4 [416 kB]
Get:72 http://172.17.4.1/private bookworm-staging/main armhf libfribidi0 armhf 1.0.8-2.1 [63.7 kB]
Get:73 http://172.17.4.1/private bookworm-staging/main armhf libgraphite2-3 armhf 1.3.14-1 [70.3 kB]
Get:74 http://172.17.4.1/private bookworm-staging/main armhf libharfbuzz0b armhf 2.7.4-1+b1 [1420 kB]
Get:75 http://172.17.4.1/private bookworm-staging/main armhf libthai-data all 0.1.29-1 [176 kB]
Get:76 http://172.17.4.1/private bookworm-staging/main armhf libdatrie1 armhf 0.2.13-2+b2 [39.9 kB]
Get:77 http://172.17.4.1/private bookworm-staging/main armhf libthai0 armhf 0.1.29-1 [54.5 kB]
Get:78 http://172.17.4.1/private bookworm-staging/main armhf libpango-1.0-0 armhf 1.50.9+ds-1 [214 kB]
Get:79 http://172.17.4.1/private bookworm-staging/main armhf libpangoft2-1.0-0 armhf 1.50.9+ds-1 [68.6 kB]
Get:80 http://172.17.4.1/private bookworm-staging/main armhf libpangocairo-1.0-0 armhf 1.50.9+ds-1 [58.3 kB]
Get:81 http://172.17.4.1/private bookworm-staging/main armhf libtcl8.6 armhf 8.6.12+dfsg-1 [906 kB]
Get:82 http://172.17.4.1/private bookworm-staging/main armhf libdeflate0 armhf 1.12-1 [60.5 kB]
Get:83 http://172.17.4.1/private bookworm-staging/main armhf libjbig0 armhf 2.1-3.1+b2 [27.6 kB]
Get:84 http://172.17.4.1/private bookworm-staging/main armhf liblerc4 armhf 4.0.0+ds-1 [121 kB]
Get:85 http://172.17.4.1/private bookworm-staging/main armhf libwebp7 armhf 1.2.2-2 [237 kB]
Get:86 http://172.17.4.1/private bookworm-staging/main armhf libtiff5 armhf 4.4.0-4 [290 kB]
Get:87 http://172.17.4.1/private bookworm-staging/main armhf libxft2 armhf 2.3.4-1 [50.2 kB]
Get:88 http://172.17.4.1/private bookworm-staging/main armhf x11-common all 1:7.7+23 [252 kB]
Get:89 http://172.17.4.1/private bookworm-staging/main armhf libxss1 armhf 1:1.2.3-1 [17.3 kB]
Get:90 http://172.17.4.1/private bookworm-staging/main armhf libtk8.6 armhf 8.6.12-1 [680 kB]
Get:91 http://172.17.4.1/private bookworm-staging/main armhf libice6 armhf 2:1.0.10-1 [51.7 kB]
Get:92 http://172.17.4.1/private bookworm-staging/main armhf libsm6 armhf 2:1.2.3-1 [32.9 kB]
Get:93 http://172.17.4.1/private bookworm-staging/main armhf libxt6 armhf 1:1.2.1-1 [159 kB]
Get:94 http://172.17.4.1/private bookworm-staging/main armhf r-base-core armhf 4.2.1-2 [27.7 MB]
Get:95 http://172.17.4.1/private bookworm-staging/main armhf libgfortran-12-dev armhf 12.1.0-7+rpi1 [285 kB]
Get:96 http://172.17.4.1/private bookworm-staging/main armhf gfortran-12 armhf 12.1.0-7+rpi1 [51.0 MB]
Get:97 http://172.17.4.1/private bookworm-staging/main armhf gfortran armhf 4:12.1.0-3+rpi1 [1428 B]
Get:98 http://172.17.4.1/private bookworm-staging/main armhf libblas-dev armhf 3.10.1-2 [114 kB]
Get:99 http://172.17.4.1/private bookworm-staging/main armhf liblapack-dev armhf 3.10.1-2 [2847 kB]
Get:100 http://172.17.4.1/private bookworm-staging/main armhf libncurses6 armhf 6.3+20220423-2 [79.6 kB]
Get:101 http://172.17.4.1/private bookworm-staging/main armhf libncurses-dev armhf 6.3+20220423-2 [289 kB]
Get:102 http://172.17.4.1/private bookworm-staging/main armhf libncurses5-dev armhf 6.3+20220423-2 [940 B]
Get:103 http://172.17.4.1/private bookworm-staging/main armhf libreadline-dev armhf 8.1.2-1.2 [120 kB]
Get:104 http://172.17.4.1/private bookworm-staging/main armhf libjpeg62-turbo-dev armhf 1:2.1.2-1 [261 kB]
Get:105 http://172.17.4.1/private bookworm-staging/main armhf libjpeg-dev armhf 1:2.1.2-1 [74.7 kB]
Get:106 http://172.17.4.1/private bookworm-staging/main armhf libpcre2-16-0 armhf 10.40-1+b2 [208 kB]
Get:107 http://172.17.4.1/private bookworm-staging/main armhf libpcre2-32-0 armhf 10.40-1+b2 [200 kB]
Get:108 http://172.17.4.1/private bookworm-staging/main armhf libpcre2-posix3 armhf 10.40-1+b2 [53.7 kB]
Get:109 http://172.17.4.1/private bookworm-staging/main armhf libpcre2-dev armhf 10.40-1+b2 [637 kB]
Get:110 http://172.17.4.1/private bookworm-staging/main armhf libpcre16-3 armhf 2:8.39-14 [239 kB]
Get:111 http://172.17.4.1/private bookworm-staging/main armhf libpcre32-3 armhf 2:8.39-14 [232 kB]
Get:112 http://172.17.4.1/private bookworm-staging/main armhf libpcrecpp0v5 armhf 2:8.39-14 [150 kB]
Get:113 http://172.17.4.1/private bookworm-staging/main armhf libpcre3-dev armhf 2:8.39-14 [569 kB]
Get:114 http://172.17.4.1/private bookworm-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-4+b2 [183 kB]
Get:115 http://172.17.4.1/private bookworm-staging/main armhf libpng-dev armhf 1.6.37-5 [272 kB]
Get:116 http://172.17.4.1/private bookworm-staging/main armhf libbz2-dev armhf 1.0.8-5+b2 [26.8 kB]
Get:117 http://172.17.4.1/private bookworm-staging/main armhf liblzma-dev armhf 5.2.5-2.1 [218 kB]
Get:118 http://172.17.4.1/private bookworm-staging/main armhf icu-devtools armhf 71.1-3 [177 kB]
Get:119 http://172.17.4.1/private bookworm-staging/main armhf libicu-dev armhf 71.1-3 [9799 kB]
Get:120 http://172.17.4.1/private bookworm-staging/main armhf libxmuu1 armhf 2:1.1.3-3 [23.3 kB]
Get:121 http://172.17.4.1/private bookworm-staging/main armhf xauth armhf 1:1.1.1-1 [36.9 kB]
Get:122 http://172.17.4.1/private bookworm-staging/main armhf pkg-config armhf 0.29.2-1 [61.5 kB]
Get:123 http://172.17.4.1/private bookworm-staging/main armhf r-base-dev all 4.2.1-2 [4488 B]
Get:124 http://172.17.4.1/private bookworm-staging/main armhf libfile-which-perl all 1.27-1 [17.3 kB]
Get:125 http://172.17.4.1/private bookworm-staging/main armhf libswitch-perl all 2.17-3 [20.3 kB]
Get:126 http://172.17.4.1/private bookworm-staging/main armhf libencode-locale-perl all 1.05-2 [13.5 kB]
Get:127 http://172.17.4.1/private bookworm-staging/main armhf libtimedate-perl all 2.3300-2 [39.3 kB]
Get:128 http://172.17.4.1/private bookworm-staging/main armhf libhttp-date-perl all 6.05-1 [10.4 kB]
Get:129 http://172.17.4.1/private bookworm-staging/main armhf libio-html-perl all 1.004-3 [16.2 kB]
Get:130 http://172.17.4.1/private bookworm-staging/main armhf liblwp-mediatypes-perl all 6.04-1 [19.9 kB]
Get:131 http://172.17.4.1/private bookworm-staging/main armhf libregexp-ipv6-perl all 0.03-3 [5212 B]
Get:132 http://172.17.4.1/private bookworm-staging/main armhf liburi-perl all 5.12-1 [93.7 kB]
Get:133 http://172.17.4.1/private bookworm-staging/main armhf libhttp-message-perl all 6.37-1 [80.9 kB]
Get:134 http://172.17.4.1/private bookworm-staging/main armhf libparams-util-perl armhf 1.102-1+b2 [24.5 kB]
Get:135 http://172.17.4.1/private bookworm-staging/main armhf libsub-install-perl all 0.928-2 [11.0 kB]
Get:136 http://172.17.4.1/private bookworm-staging/main armhf libdata-optlist-perl all 0.112-1 [11.8 kB]
Get:137 http://172.17.4.1/private bookworm-staging/main armhf libb-hooks-op-check-perl armhf 0.22-2 [10.9 kB]
Get:138 http://172.17.4.1/private bookworm-staging/main armhf libdynaloader-functions-perl all 0.003-2 [13.1 kB]
Get:139 http://172.17.4.1/private bookworm-staging/main armhf libdevel-callchecker-perl armhf 0.008-1+b3 [15.7 kB]
Get:140 http://172.17.4.1/private bookworm-staging/main armhf libparams-classify-perl armhf 0.015-2 [24.5 kB]
Get:141 http://172.17.4.1/private bookworm-staging/main armhf libmodule-runtime-perl all 0.016-2 [19.6 kB]
Get:142 http://172.17.4.1/private bookworm-staging/main armhf libtry-tiny-perl all 0.31-1 [24.2 kB]
Get:143 http://172.17.4.1/private bookworm-staging/main armhf libmodule-implementation-perl all 0.09-2 [12.6 kB]
Get:144 http://172.17.4.1/private bookworm-staging/main armhf libscalar-list-utils-perl armhf 1:1.62-1 [61.6 kB]
Get:145 http://172.17.4.1/private bookworm-staging/main armhf libpackage-stash-perl all 0.40-1 [22.0 kB]
Get:146 http://172.17.4.1/private bookworm-staging/main armhf libclass-load-perl all 0.25-1 [16.1 kB]
Get:147 http://172.17.4.1/private bookworm-staging/main armhf libclass-load-xs-perl armhf 0.10-2 [14.3 kB]
Get:148 http://172.17.4.1/private bookworm-staging/main armhf libsub-exporter-progressive-perl all 0.001013-2 [8044 B]
Get:149 http://172.17.4.1/private bookworm-staging/main armhf libdevel-globaldestruction-perl all 0.14-2 [8500 B]
Get:150 http://172.17.4.1/private bookworm-staging/main armhf libalgorithm-c3-perl all 0.11-1 [11.7 kB]
Get:151 http://172.17.4.1/private bookworm-staging/main armhf libclass-c3-perl all 0.35-1 [22.9 kB]
Get:152 http://172.17.4.1/private bookworm-staging/main armhf libmro-compat-perl all 0.15-1 [12.6 kB]
Get:153 http://172.17.4.1/private bookworm-staging/main armhf libdevel-overloadinfo-perl all 0.007-1 [7896 B]
Get:154 http://172.17.4.1/private bookworm-staging/main armhf libdevel-stacktrace-perl all 2.0400-1 [28.6 kB]
Get:155 http://172.17.4.1/private bookworm-staging/main armhf libsub-exporter-perl all 0.988-1 [51.9 kB]
Get:156 http://172.17.4.1/private bookworm-staging/main armhf libeval-closure-perl all 0.14-2 [12.0 kB]
Get:157 http://172.17.4.1/private bookworm-staging/main armhf libdist-checkconflicts-perl all 0.11-2 [10.5 kB]
Get:158 http://172.17.4.1/private bookworm-staging/main armhf libmodule-runtime-conflicts-perl all 0.003-2 [7356 B]
Get:159 http://172.17.4.1/private bookworm-staging/main armhf libsub-name-perl armhf 0.26-2 [13.3 kB]
Get:160 http://172.17.4.1/private bookworm-staging/main armhf libpackage-deprecationmanager-perl all 0.17-2 [16.8 kB]
Get:161 http://172.17.4.1/private bookworm-staging/main armhf libpackage-stash-xs-perl armhf 0.30-1 [18.2 kB]
Get:162 http://172.17.4.1/private bookworm-staging/main armhf libmoose-perl armhf 2.2200-1+b1 [802 kB]
Get:163 http://172.17.4.1/private bookworm-staging/main armhf libvariable-magic-perl armhf 0.62-2 [43.0 kB]
Get:164 http://172.17.4.1/private bookworm-staging/main armhf libb-hooks-endofscope-perl all 0.26-1 [19.6 kB]
Get:165 http://172.17.4.1/private bookworm-staging/main armhf libsub-identify-perl armhf 0.14-2 [11.6 kB]
Get:166 http://172.17.4.1/private bookworm-staging/main armhf libnamespace-clean-perl all 0.27-2 [17.8 kB]
Get:167 http://172.17.4.1/private bookworm-staging/main armhf libcurl3-gnutls armhf 7.84.0-2 [315 kB]
Get:168 http://172.17.4.1/private bookworm-staging/main armhf libwww-curl-perl armhf 4.17-7+b2 [60.5 kB]
Get:169 http://172.17.4.1/private bookworm-staging/main armhf libwww-curl-simple-perl all 0.100191-2 [12.5 kB]
Get:170 http://172.17.4.1/private bookworm-staging/main armhf dh-r all 20210816 [41.6 kB]
Get:171 http://172.17.4.1/private bookworm-staging/main armhf r-cran-littler armhf 0.3.15-1 [92.5 kB]
Get:172 http://172.17.4.1/private bookworm-staging/main armhf littler all 0.3.15-1 [16.9 kB]
Get:173 http://172.17.4.1/private bookworm-staging/main armhf r-bioc-biocgenerics all 0.42.0-1 [589 kB]
Get:174 http://172.17.4.1/private bookworm-staging/main armhf r-bioc-limma armhf 3.52.2+dfsg-1 [1754 kB]
Get:175 http://172.17.4.1/private bookworm-staging/main armhf r-cran-lattice armhf 0.20-45-3 [1176 kB]
Get:176 http://172.17.4.1/private bookworm-staging/main armhf r-cran-locfit armhf 1.5-9.6-1 [483 kB]
Get:177 http://172.17.4.1/private bookworm-staging/main armhf r-cran-pkgkitten all 0.2.2-2 [27.0 kB]
Get:178 http://172.17.4.1/private bookworm-staging/main armhf r-cran-rcpp armhf 1.0.9-1 [2036 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 141 MB in 14s (10.2 MB/s)
Selecting previously unselected package libuchardet0:armhf.
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Preparing to unpack .../000-libuchardet0_0.0.7-1_armhf.deb ...
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Preparing to unpack .../003-libpipeline1_1.5.6-2_armhf.deb ...
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Unpacking man-db (2.10.2-1) ...
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Unpacking libssl3:armhf (3.0.5-2) over (3.0.4-2) ...
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Unpacking libmagic-mgc (1:5.41-4) ...
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Unpacking gettext-base (0.21-8) ...
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Preparing to unpack .../012-ucf_3.0043_all.deb ...
Moving old data out of the way
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Unpacking m4 (1.4.19-1) ...
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Unpacking autoconf (2.71-2) ...
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Unpacking automake (1:1.16.5-1.3) ...
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Unpacking autopoint (0.21-8) ...
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Unpacking dctrl-tools (2.24-3) ...
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Unpacking libdebhelper-perl (13.9) ...
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Selecting previously unselected package libelf1:armhf.
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Unpacking unzip (6.0-27) ...
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Unpacking libpaper1:armhf (1.1.28) ...
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Unpacking libpaper-utils (1.1.28) ...
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Unpacking libblas3:armhf (3.10.1-2) ...
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Unpacking libexpat1:armhf (2.4.8-1) ...
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Unpacking fontconfig-config (2.13.1-4.4) ...
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Unpacking sbuild-build-depends-r-bioc-edger-dummy (0.invalid.0) ...
Setting up libexpat1:armhf (2.4.8-1) ...
Setting up libpcrecpp0v5:armhf (2:8.39-14) ...
Setting up libpipeline1:armhf (1.5.6-2) ...
Setting up libgraphite2-3:armhf (1.3.14-1) ...
Setting up libpixman-1-0:armhf (0.40.0-1) ...
Setting up libicu71:armhf (71.1-3) ...
Setting up libfile-which-perl (1.27-1) ...
Setting up libxau6:armhf (1:1.0.9-1) ...
Setting up libpsl5:armhf (0.21.0-1.2) ...
Setting up liblerc4:armhf (4.0.0+ds-1) ...
Setting up bsdextrautils (2.38.1-1) ...
Setting up libpcre16-3:armhf (2:8.39-14) ...
Setting up libdynaloader-functions-perl (0.003-2) ...
Setting up libdatrie1:armhf (0.2.13-2+b2) ...
Setting up libmagic-mgc (1:5.41-4) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libsub-identify-perl (0.14-2) ...
Setting up libglib2.0-0:armhf (2.72.3-1) ...
No schema files found: doing nothing.
Setting up libscalar-list-utils-perl (1:1.62-1) ...
Setting up unzip (6.0-27) ...
Setting up libdebhelper-perl (13.9) ...
Setting up libbrotli1:armhf (1.0.9-2+b2) ...
Setting up liblwp-mediatypes-perl (6.04-1) ...
Setting up libssl3:armhf (3.0.5-2) ...
Setting up x11-common (1:7.7+23) ...
invoke-rc.d: could not determine current runlevel
invoke-rc.d: policy-rc.d denied execution of restart.
Setting up libtry-tiny-perl (0.31-1) ...
Setting up libnghttp2-14:armhf (1.48.0-1) ...
Setting up libmagic1:armhf (1:5.41-4) ...
Setting up libdeflate0:armhf (1.12-1) ...
Setting up gettext-base (0.21-8) ...
Setting up m4 (1.4.19-1) ...
Setting up libencode-locale-perl (1.05-2) ...
Setting up file (1:5.41-4) ...
Setting up libjbig0:armhf (2.1-3.1+b2) ...
Setting up libpcre2-16-0:armhf (10.40-1+b2) ...
Setting up libsub-install-perl (0.928-2) ...
Setting up zip (3.0-12) ...
Setting up libpackage-stash-xs-perl:armhf (0.30-1) ...
Setting up autotools-dev (20220109.1) ...
Setting up libpcre2-32-0:armhf (10.40-1+b2) ...
Setting up libblas3:armhf (3.10.1-2) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode
Setting up libalgorithm-c3-perl (0.11-1) ...
Setting up libjpeg62-turbo:armhf (1:2.1.2-1) ...
Setting up libswitch-perl (2.17-3) ...
Setting up libx11-data (2:1.8.1-2) ...
Setting up libjpeg62-turbo-dev:armhf (1:2.1.2-1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ...
Setting up libncurses6:armhf (6.3+20220423-2) ...
Setting up libfribidi0:armhf (1.0.8-2.1) ...
Setting up libpng16-16:armhf (1.6.37-5) ...
Setting up libpcre32-3:armhf (2:8.39-14) ...
Setting up libvariable-magic-perl (0.62-2) ...
Setting up libio-html-perl (1.004-3) ...
Setting up libtcl8.6:armhf (8.6.12+dfsg-1) ...
Setting up autopoint (0.21-8) ...
Setting up libb-hooks-op-check-perl:armhf (0.22-2) ...
Setting up icu-devtools (71.1-3) ...
Setting up pkg-config (0.29.2-1) ...
Setting up fonts-dejavu-core (2.37-2) ...
Setting up ucf (3.0043) ...
Setting up libparams-util-perl (1.102-1+b2) ...
Setting up libgfortran5:armhf (12.1.0-7+rpi1) ...
Setting up autoconf (2.71-2) ...
Setting up libsub-exporter-progressive-perl (0.001013-2) ...
Setting up libwebp7:armhf (1.2.2-2) ...
Setting up libtimedate-perl (2.3300-2) ...
Setting up libregexp-ipv6-perl (0.03-3) ...
Setting up liblzma-dev:armhf (5.2.5-2.1) ...
Setting up libsub-name-perl:armhf (0.26-2) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-4+b2) ...
Setting up libpcre2-posix3:armhf (10.40-1+b2) ...
Setting up libmd0:armhf (1.0.4-2) ...
Setting up libuchardet0:armhf (0.0.7-1) ...
Setting up libsub-override-perl (0.09-3) ...
Setting up libthai-data (0.1.29-1) ...
Setting up libdevel-globaldestruction-perl (0.14-2) ...
Setting up libssh2-1:armhf (1.10.0-3+b1) ...
Setting up libdevel-stacktrace-perl (2.0400-1) ...
Setting up libtiff5:armhf (4.4.0-4) ...
Setting up openssl (3.0.5-2) ...
Setting up libbsd0:armhf (0.11.6-1) ...
Setting up libelf1:armhf (0.187-1) ...
Setting up libicu-dev:armhf (71.1-3) ...
Setting up libxml2:armhf (2.9.14+dfsg-1) ...
Setting up xdg-utils (1.1.3-4.1) ...
update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
Setting up liburi-perl (5.12-1) ...
Setting up libblas-dev:armhf (3.10.1-2) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode
Setting up dctrl-tools (2.24-3) ...
Setting up libbz2-dev:armhf (1.0.8-5+b2) ...
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 libfile-stripnondeterminism-perl (1.13.0-1) ...
Setting up libpaper1:armhf (1.1.28) ...
Creating config file /etc/papersize with new version
Setting up libice6:armhf (2:1.0.10-1) ...
Setting up libhttp-date-perl (6.05-1) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up liblapack3:armhf (3.10.1-2) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode
Setting up libncurses-dev:armhf (6.3+20220423-2) ...
Setting up libxcb1:armhf (1.15-1) ...
Setting up gettext (0.21-8) ...
Setting up libpcre2-dev:armhf (10.40-1+b2) ...
Setting up libtool (2.4.7-4) ...
Setting up libxcb-render0:armhf (1.15-1) ...
Setting up libpcre3-dev:armhf (2:8.39-14) ...
Setting up fontconfig-config (2.13.1-4.4) ...
Setting up libpng-dev:armhf (1.6.37-5) ...
Setting up libjpeg-dev:armhf (1:2.1.2-1) ...
Setting up libcurl3-gnutls:armhf (7.84.0-2) ...
Setting up libgfortran-12-dev:armhf (12.1.0-7+rpi1) ...
Setting up libxcb-shm0:armhf (1.15-1) ...
Setting up libpaper-utils (1.1.28) ...
Setting up libclass-c3-perl (0.35-1) ...
Setting up libreadline-dev:armhf (8.1.2-1.2) ...
Setting up libdevel-callchecker-perl (0.008-1+b3) ...
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up dh-autoreconf (20) ...
Setting up libthai0:armhf (0.1.29-1) ...
Setting up ca-certificates (20211016) ...
Updating certificates in /etc/ssl/certs...
127 added, 0 removed; done.
Setting up gfortran-12 (12.1.0-7+rpi1) ...
Setting up libfreetype6:armhf (2.12.1+dfsg-3) ...
Setting up liblapack-dev:armhf (3.10.1-2) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode
Setting up libdata-optlist-perl (0.112-1) ...
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 libncurses5-dev:armhf (6.3+20220423-2) ...
Setting up libcurl4:armhf (7.84.0-2) ...
Setting up libx11-6:armhf (2:1.8.1-2) ...
Setting up libharfbuzz0b:armhf (2.7.4-1+b1) ...
Setting up libmro-compat-perl (0.15-1) ...
Setting up libsm6:armhf (2:1.2.3-1) ...
Setting up libxmuu1:armhf (2:1.1.3-3) ...
Setting up libsub-exporter-perl (0.988-1) ...
Setting up libhttp-message-perl (6.37-1) ...
Setting up libeval-closure-perl (0.14-2) ...
Setting up libxrender1:armhf (1:0.9.10-1.1) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libparams-classify-perl:armhf (0.015-2) ...
Setting up libxext6:armhf (2:1.3.4-1) ...
Setting up libwww-curl-perl (4.17-7+b2) ...
Setting up man-db (2.10.2-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up gfortran (4:12.1.0-3+rpi1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up libmodule-runtime-perl (0.016-2) ...
Setting up libdist-checkconflicts-perl (0.11-2) ...
Setting up libxt6:armhf (1:1.2.1-1) ...
Setting up xauth (1:1.1.1-1) ...
Setting up libxss1:armhf (1:1.2.3-1) ...
Setting up libmodule-implementation-perl (0.09-2) ...
Setting up libpackage-stash-perl (0.40-1) ...
Setting up debhelper (13.9) ...
Setting up libmodule-runtime-conflicts-perl (0.003-2) ...
Setting up libclass-load-perl (0.25-1) ...
Setting up libpackage-deprecationmanager-perl (0.17-2) ...
Setting up libdevel-overloadinfo-perl (0.007-1) ...
Setting up libclass-load-xs-perl (0.10-2) ...
Setting up libb-hooks-endofscope-perl (0.26-1) ...
Setting up libmoose-perl:armhf (2.2200-1+b1) ...
Setting up libnamespace-clean-perl (0.27-2) ...
Setting up libwww-curl-simple-perl (0.100191-2) ...
Processing triggers for libc-bin (2.33-8+rpi1) ...
Processing triggers for sgml-base (1.30) ...
Setting up libfontconfig1:armhf (2.13.1-4.4) ...
Setting up fontconfig (2.13.1-4.4) ...
Regenerating fonts cache... done.
Setting up libxft2:armhf (2.3.4-1) ...
Setting up libtk8.6:armhf (8.6.12-1) ...
Setting up libpango-1.0-0:armhf (1.50.9+ds-1) ...
Setting up libcairo2:armhf (1.16.0-6) ...
Setting up libpangoft2-1.0-0:armhf (1.50.9+ds-1) ...
Setting up libpangocairo-1.0-0:armhf (1.50.9+ds-1) ...
Setting up r-base-core (4.2.1-2) ...
Creating config file /etc/R/Renviron with new version
Setting up r-cran-lattice (0.20-45-3) ...
Setting up r-cran-locfit (1.5-9.6-1) ...
Setting up r-cran-pkgkitten (0.2.2-2) ...
Setting up r-cran-littler (0.3.15-1) ...
Setting up r-cran-rcpp (1.0.9-1) ...
Setting up r-bioc-biocgenerics (0.42.0-1) ...
Setting up r-base-dev (4.2.1-2) ...
Setting up littler (0.3.15-1) ...
Setting up r-bioc-limma (3.52.2+dfsg-1) ...
Setting up dh-r (20210816) ...
Setting up sbuild-build-depends-r-bioc-edger-dummy (0.invalid.0) ...
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.
Processing triggers for libc-bin (2.33-8+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-187-generic armhf (armv8l)
Toolchain package versions: binutils_2.38.90.20220713-2+rpi1 dpkg-dev_1.21.9+rpi1 g++-12_12.1.0-7+rpi1 gcc-12_12.1.0-7+rpi1 libc6-dev_2.33-8+rpi1 libstdc++-12-dev_12.1.0-7+rpi1 libstdc++6_12.1.0-7+rpi1 linux-libc-dev_5.18.14-1+rpi1
Package versions: adduser_3.123 apt_2.5.2 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-8 autotools-dev_20220109.1 base-files_12.2+rpi1 base-passwd_3.5.52 bash_5.1-6.1 binutils_2.38.90.20220713-2+rpi1 binutils-arm-linux-gnueabihf_2.38.90.20220713-2+rpi1 binutils-common_2.38.90.20220713-2+rpi1 bsdextrautils_2.38.1-1 bsdutils_1:2.38.1-1 build-essential_12.9 bzip2_1.0.8-5+b2 ca-certificates_20211016 coreutils_8.32-4.1 cpp_4:12.1.0-3+rpi1 cpp-12_12.1.0-7+rpi1 dash_0.5.11+git20210903+057cd650a4ed-8 dctrl-tools_2.24-3 debconf_1.5.79 debhelper_13.9 debianutils_5.7-0.3 dh-autoreconf_20 dh-r_20210816 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.7-5 dirmngr_2.2.35-3 dpkg_1.21.9+rpi1 dpkg-dev_1.21.9+rpi1 dwz_0.14-1 e2fsprogs_1.46.5-2 fakeroot_1.29-1 file_1:5.41-4 findutils_4.9.0-3 fontconfig_2.13.1-4.4 fontconfig-config_2.13.1-4.4 fonts-dejavu-core_2.37-2 g++_4:12.1.0-3+rpi1 g++-12_12.1.0-7+rpi1 gcc_4:12.1.0-3+rpi1 gcc-12_12.1.0-7+rpi1 gcc-12-base_12.1.0-7+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 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libc-dev-bin_2.33-8+rpi1 libc6_2.33-8+rpi1 libc6-dev_2.33-8+rpi1 libcairo2_1.16.0-6 libcap-ng0_0.8.3-1 libcap2_1:2.44-1 libcap2-bin_1:2.44-1 libcc1-0_12.1.0-7+rpi1 libclass-c3-perl_0.35-1 libclass-load-perl_0.25-1 libclass-load-xs-perl_0.10-2 libcom-err2_1.46.5-2 libcrypt-dev_1:4.4.28-2 libcrypt1_1:4.4.28-2 libctf-nobfd0_2.38.90.20220713-2+rpi1 libctf0_2.38.90.20220713-2+rpi1 libcurl3-gnutls_7.84.0-2 libcurl4_7.84.0-2 libdata-optlist-perl_0.112-1 libdatrie1_0.2.13-2+b2 libdb5.3_5.3.28+dfsg1-0.10 libdebconfclient0_0.263 libdebhelper-perl_13.9 libdeflate0_1.12-1 libdevel-callchecker-perl_0.008-1+b3 libdevel-globaldestruction-perl_0.14-2 libdevel-overloadinfo-perl_0.007-1 libdevel-stacktrace-perl_2.0400-1 libdist-checkconflicts-perl_0.11-2 libdpkg-perl_1.21.9+rpi1 libdynaloader-functions-perl_0.003-2 libelf1_0.187-1 libencode-locale-perl_1.05-2 libeval-closure-perl_0.14-2 libexpat1_2.4.8-1 libext2fs2_1.46.5-2 libfakeroot_1.29-1 libffi8_3.4.2-4 libfile-stripnondeterminism-perl_1.13.0-1 libfile-which-perl_1.27-1 libfontconfig1_2.13.1-4.4 libfreetype6_2.12.1+dfsg-3 libfribidi0_1.0.8-2.1 libgcc-12-dev_12.1.0-7+rpi1 libgcc-s1_12.1.0-7+rpi1 libgcrypt20_1.10.1-2+b2 libgdbm-compat4_1.23-1 libgdbm6_1.23-1 libgfortran-12-dev_12.1.0-7+rpi1 libgfortran5_12.1.0-7+rpi1 libglib2.0-0_2.72.3-1 libgmp10_2:6.2.1+dfsg1-1 libgnutls30_3.7.7-2 libgomp1_12.1.0-7+rpi1 libgpg-error0_1.45-2 libgraphite2-3_1.3.14-1 libgssapi-krb5-2_1.20-1 libharfbuzz0b_2.7.4-1+b1 libhogweed6_3.7.3-1 libhttp-date-perl_6.05-1 libhttp-message-perl_6.37-1 libice6_2:1.0.10-1 libicu-dev_71.1-3 libicu71_71.1-3 libidn2-0_2.3.3-1 libio-html-perl_1.004-3 libisl23_0.25-1 libjbig0_2.1-3.1+b2 libjpeg-dev_1:2.1.2-1 libjpeg62-turbo_1:2.1.2-1 libjpeg62-turbo-dev_1:2.1.2-1 libk5crypto3_1.20-1 libkeyutils1_1.6.3-1 libkrb5-3_1.20-1 libkrb5support0_1.20-1 libksba8_1.6.0-3 liblapack-dev_3.10.1-2 liblapack3_3.10.1-2 libldap-2.5-0_2.5.12+dfsg-2 liblerc4_4.0.0+ds-1 liblwp-mediatypes-perl_6.04-1 liblz4-1_1.9.3-2 liblzma-dev_5.2.5-2.1 liblzma5_5.2.5-2.1 libmagic-mgc_1:5.41-4 libmagic1_1:5.41-4 libmd0_1.0.4-2 libmodule-implementation-perl_0.09-2 libmodule-runtime-conflicts-perl_0.003-2 libmodule-runtime-perl_0.016-2 libmoose-perl_2.2200-1+b1 libmount1_2.38.1-1 libmpc3_1.2.1-2 libmpfr6_4.1.0-3 libmro-compat-perl_0.15-1 libnamespace-clean-perl_0.27-2 libncurses-dev_6.3+20220423-2 libncurses5-dev_6.3+20220423-2 libncurses6_6.3+20220423-2 libncursesw6_6.3+20220423-2 libnettle8_3.7.3-1 libnghttp2-14_1.48.0-1 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.24.1-1 libpackage-deprecationmanager-perl_0.17-2 libpackage-stash-perl_0.40-1 libpackage-stash-xs-perl_0.30-1 libpam-cap_1:2.44-1 libpam-modules_1.4.0-13 libpam-modules-bin_1.4.0-13 libpam-runtime_1.4.0-13 libpam0g_1.4.0-13 libpango-1.0-0_1.50.9+ds-1 libpangocairo-1.0-0_1.50.9+ds-1 libpangoft2-1.0-0_1.50.9+ds-1 libpaper-utils_1.1.28 libpaper1_1.1.28 libparams-classify-perl_0.015-2 libparams-util-perl_1.102-1+b2 libpcre16-3_2:8.39-14 libpcre2-16-0_10.40-1+b2 libpcre2-32-0_10.40-1+b2 libpcre2-8-0_10.40-1+b2 libpcre2-dev_10.40-1+b2 libpcre2-posix3_10.40-1+b2 libpcre3_2:8.39-14 libpcre3-dev_2:8.39-14 libpcre32-3_2:8.39-14 libpcrecpp0v5_2:8.39-14 libperl5.34_5.34.0-5 libpipeline1_1.5.6-2 libpixman-1-0_0.40.0-1 libpng-dev_1.6.37-5 libpng16-16_1.6.37-5 libpsl5_0.21.0-1.2 libreadline-dev_8.1.2-1.2 libreadline8_8.1.2-1.2 libregexp-ipv6-perl_0.03-3 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.28+dfsg-6+b1 libsasl2-modules-db_2.1.28+dfsg-6+b1 libscalar-list-utils-perl_1:1.62-1 libseccomp2_2.5.4-1+rpi1 libselinux1_3.4-1 libsemanage-common_3.4-1 libsemanage2_3.4-1 libsepol1_3.1-1 libsepol2_3.4-2 libsm6_2:1.2.3-1 libsmartcols1_2.38.1-1 libsqlite3-0_3.39.2-1 libss2_1.46.5-2 libssh2-1_1.10.0-3+b1 libssl1.1_1.1.1o-1 libssl3_3.0.5-2 libstdc++-12-dev_12.1.0-7+rpi1 libstdc++6_12.1.0-7+rpi1 libsub-exporter-perl_0.988-1 libsub-exporter-progressive-perl_0.001013-2 libsub-identify-perl_0.14-2 libsub-install-perl_0.928-2 libsub-name-perl_0.26-2 libsub-override-perl_0.09-3 libswitch-perl_2.17-3 libsystemd0_251.3-1+rpi1 libtasn1-6_4.18.0-4 libtcl8.6_8.6.12+dfsg-1 libthai-data_0.1.29-1 libthai0_0.1.29-1 libtiff5_4.4.0-4 libtimedate-perl_2.3300-2 libtinfo6_6.3+20220423-2 libtirpc-common_1.3.2-2.1 libtirpc-dev_1.3.2-2.1 libtirpc3_1.3.2-2.1 libtk8.6_8.6.12-1 libtool_2.4.7-4 libtry-tiny-perl_0.31-1 libubsan1_12.1.0-7+rpi1 libuchardet0_0.0.7-1 libudev1_251.3-1+rpi1 libunistring2_1.0-1 liburi-perl_5.12-1 libuuid1_2.38.1-1 libvariable-magic-perl_0.62-2 libwebp7_1.2.2-2 libwww-curl-perl_4.17-7+b2 libwww-curl-simple-perl_0.100191-2 libx11-6_2:1.8.1-2 libx11-data_2:1.8.1-2 libxau6_1:1.0.9-1 libxcb-render0_1.15-1 libxcb-shm0_1.15-1 libxcb1_1.15-1 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.4-1 libxft2_2.3.4-1 libxml2_2.9.14+dfsg-1 libxmuu1_2:1.1.3-3 libxrender1_1:0.9.10-1.1 libxss1_1:1.2.3-1 libxt6_1:1.2.1-1 libxxhash0_0.8.1-1 libzstd1_1.5.2+dfsg-1 linux-libc-dev_5.18.14-1+rpi1 littler_0.3.15-1 login_1:4.11.1+dfsg1-2 logsave_1.46.5-2 lsb-base_11.2+rpi1 m4_1.4.19-1 make_4.3-4.1 man-db_2.10.2-1 mawk_1.3.4.20200120-3.1 mount_2.38.1-1 nano_6.4-1 ncurses-base_6.3+20220423-2 ncurses-bin_6.3+20220423-2 netbase_6.3 openssl_3.0.5-2 passwd_1:4.11.1+dfsg1-2 patch_2.7.6-7 perl_5.34.0-5 perl-base_5.34.0-5 perl-modules-5.34_5.34.0-5 pinentry-curses_1.2.0-2 pkg-config_0.29.2-1 po-debconf_1.0.21+nmu1 r-base-core_4.2.1-2 r-base-dev_4.2.1-2 r-bioc-biocgenerics_0.42.0-1 r-bioc-limma_3.52.2+dfsg-1 r-cran-lattice_0.20-45-3 r-cran-littler_0.3.15-1 r-cran-locfit_1.5-9.6-1 r-cran-pkgkitten_0.2.2-2 r-cran-rcpp_1.0.9-1 raspbian-archive-keyring_20120528.2 readline-common_8.1.2-1.2 rpcsvc-proto_1.4.2-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-edger-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sgml-base_1.30 sysvinit-utils_3.04-1 tar_1.34+dfsg-1 tzdata_2022a-1 ucf_3.0043 unzip_6.0-27 util-linux_2.38.1-1 util-linux-extra_2.38.1-1 x11-common_1:7.7+23 xauth_1:1.1.1-1 xdg-utils_1.1.3-4.1 xz-utils_5.2.5-2.1 zip_3.0-12 zlib1g_1:1.2.11.dfsg-4+b2 zlib1g-dev_1:1.2.11.dfsg-4+b2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.u85UQHy1/trustedkeys.kbx': General error
gpgv: Signature made Fri Aug 12 20:30:14 2022 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify signature ./r-bioc-edger_3.38.4+dfsg-1.dsc
dpkg-source: info: extracting r-bioc-edger in /<<BUILDDIR>>/r-bioc-edger-3.38.4+dfsg
dpkg-source: info: unpacking r-bioc-edger_3.38.4+dfsg.orig.tar.xz
dpkg-source: info: unpacking r-bioc-edger_3.38.4+dfsg-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying Fix_DESCR.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bookworm-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bookworm-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bookworm-staging-armhf-sbuild-9b30c73b-69f2-48f1-9122-4e5259839be8
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package r-bioc-edger
dpkg-buildpackage: info: source version 3.38.4+dfsg-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --buildsystem R
dh_auto_clean -O--buildsystem=R
dh_autoreconf_clean -O--buildsystem=R
dh_clean -O--buildsystem=R
debian/rules binary-arch
dh binary-arch --buildsystem R
dh_update_autotools_config -a -O--buildsystem=R
dh_autoreconf -a -O--buildsystem=R
dh_auto_configure -a -O--buildsystem=R
dh_auto_build -a -O--buildsystem=R
dh_auto_test -a -O--buildsystem=R
create-stamp debian/debhelper-build-stamp
dh_testroot -a -O--buildsystem=R
dh_prep -a -O--buildsystem=R
dh_auto_install --destdir=debian/r-bioc-edger/ -a -O--buildsystem=R
I: R Package: edgeR Version: 3.38.4
I: Building using R version 4.2.1-2
I: R API version: r-api-4.0
I: Using built-time from d/changelog: Fri, 12 Aug 2022 22:25:23 +0200
mkdir -p /<<BUILDDIR>>/r-bioc-edger-3.38.4\+dfsg/debian/r-bioc-edger/usr/lib/R/site-library
R CMD INSTALL -l /<<BUILDDIR>>/r-bioc-edger-3.38.4\+dfsg/debian/r-bioc-edger/usr/lib/R/site-library --clean . "--built-timestamp='Fri, 12 Aug 2022 22:25:23 +0200'"
* installing *source* package 'edgeR' ...
** using staged installation
** libs
make[1]: Entering directory '/<<BUILDDIR>>/r-bioc-edger-3.38.4+dfsg/src'
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_add_prior_count.cpp -o R_add_prior_count.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_ave_log_cpm.cpp -o R_ave_log_cpm.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_calculate_cpm.cpp -o R_calculate_cpm.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_check_poisson_bound.cpp -o R_check_poisson_bound.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_compute_apl.cpp -o R_compute_apl.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_compute_nbdev.cpp -o R_compute_nbdev.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_exact_test_by_deviance.cpp -o R_exact_test_by_deviance.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_fit_levenberg.cpp -o R_fit_levenberg.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_fit_one_group.cpp -o R_fit_one_group.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_get_one_way_fitted.cpp -o R_get_one_way_fitted.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_initialize_levenberg.cpp -o R_initialize_levenberg.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_loess_by_col.cpp -o R_loess_by_col.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_maximize_interpolant.cpp -o R_maximize_interpolant.o
gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_process_hairpin_reads.c -o R_process_hairpin_reads.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_simple_good_turing.cpp -o R_simple_good_turing.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c add_prior.cpp -o add_prior.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c adj_coxreid.cpp -o adj_coxreid.o
gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fmm_spline.c -o fmm_spline.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c glm_levenberg.cpp -o glm_levenberg.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c glm_one_group.cpp -o glm_one_group.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.cpp -o init.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c interpolator.cpp -o interpolator.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c nbdev.cpp -o nbdev.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-4VWuKj/r-base-4.2.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c objects.cpp -o objects.o
g++ -std=gnu++11 -shared -L/usr/lib/R/lib -Wl,-z,relro -o edgeR.so R_add_prior_count.o R_ave_log_cpm.o R_calculate_cpm.o R_check_poisson_bound.o R_compute_apl.o R_compute_nbdev.o R_exact_test_by_deviance.o R_fit_levenberg.o R_fit_one_group.o R_get_one_way_fitted.o R_initialize_levenberg.o R_loess_by_col.o R_maximize_interpolant.o R_process_hairpin_reads.o R_simple_good_turing.o add_prior.o adj_coxreid.o fmm_spline.o glm_levenberg.o glm_one_group.o init.o interpolator.o nbdev.o objects.o -llapack -lblas -lgfortran -lm -L/usr/lib/R/lib -lR
make[1]: Leaving directory '/<<BUILDDIR>>/r-bioc-edger-3.38.4+dfsg/src'
make[1]: Entering directory '/<<BUILDDIR>>/r-bioc-edger-3.38.4+dfsg/src'
make[1]: Leaving directory '/<<BUILDDIR>>/r-bioc-edger-3.38.4+dfsg/src'
installing to /<<BUILDDIR>>/r-bioc-edger-3.38.4+dfsg/debian/r-bioc-edger/usr/lib/R/site-library/00LOCK-r-bioc-edger-3.38.4+dfsg/00new/edgeR/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (edgeR)
Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 300.
Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 301.
Use of uninitialized value $dep_line in split at /usr/share/perl5/Dpkg/Deps.pm line 304.
W: Ignoring specified R dependency: R (>= 3.6.0)
I: Using r-bioc-limma for Depends:limma (>= 3.41.5)
I: Using r-cran-jsonlite for Suggests:jsonlite
I: Using r-cran-readr for Suggests:readr
I: Using r-bioc-rhdf5 for Suggests:rhdf5
I: Using r-bioc-biobase for Suggests:Biobase
I: Using r-bioc-annotationdbi for Suggests:AnnotationDbi
I: Using r-bioc-summarizedexperiment for Suggests:SummarizedExperiment
I: Using r-bioc-org.hs.eg.db for Suggests:org.Hs.eg.db
I: Using r-cran-statmod for Suggests:statmod
I: Using r-cran-locfit for Imports:locfit
I: Using r-cran-rcpp for Imports:Rcpp
I: Using r-cran-rcpp for LinkingTo:Rcpp
I: BioConductor API version: r-api-bioc-3.15
I: Use r-bioc-edger as Debian binary package for variables substitution
dh_installdocs -a -O--buildsystem=R
dh_installchangelogs -a -O--buildsystem=R
dh_installsystemduser -a -O--buildsystem=R
dh_perl -a -O--buildsystem=R
dh_link -a -O--buildsystem=R
dh_strip_nondeterminism -a -O--buildsystem=R
dh_compress -a -O--buildsystem=R
debian/rules override_dh_fixperms
make[1]: Entering directory '/<<BUILDDIR>>/r-bioc-edger-3.38.4+dfsg'
dh_fixperms
find debian -name "*.Rnw" -exec chmod -x \{\} \;
make[1]: Leaving directory '/<<BUILDDIR>>/r-bioc-edger-3.38.4+dfsg'
dh_missing -a -O--buildsystem=R
dh_dwz -a -O--buildsystem=R
dh_strip -a -O--buildsystem=R
dh_makeshlibs -a -O--buildsystem=R
dh_shlibdeps -a -O--buildsystem=R
dh_installdeb -a -O--buildsystem=R
dh_gencontrol -a -O--buildsystem=R
dh_md5sums -a -O--buildsystem=R
dh_builddeb -a -O--buildsystem=R
dpkg-deb: building package 'r-bioc-edger' in '../r-bioc-edger_3.38.4+dfsg-1_armhf.deb'.
dpkg-deb: building package 'r-bioc-edger-dbgsym' in '../r-bioc-edger-dbgsym_3.38.4+dfsg-1_armhf.deb'.
dpkg-genbuildinfo --build=any -O../r-bioc-edger_3.38.4+dfsg-1_armhf.buildinfo
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> -O../r-bioc-edger_3.38.4+dfsg-1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2022-08-22T02:40:12Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
r-bioc-edger_3.38.4+dfsg-1_armhf.changes:
-----------------------------------------
Format: 1.8
Date: Fri, 12 Aug 2022 22:25:23 +0200
Source: r-bioc-edger
Binary: r-bioc-edger r-bioc-edger-dbgsym
Architecture: armhf
Version: 3.38.4+dfsg-1
Distribution: bookworm-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
r-bioc-edger - Empirical analysis of digital gene expression data in R
Changes:
r-bioc-edger (3.38.4+dfsg-1) unstable; urgency=medium
.
* New upstream version
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+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
r-bioc-edger-dbgsym_3.38.4+dfsg-1_armhf.deb
-------------------------------------------
new Debian package, version 2.0.
size 2151296 bytes: control archive=544 bytes.
397 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: r-bioc-edger-dbgsym
Source: r-bioc-edger
Version: 3.38.4+dfsg-1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Installed-Size: 2165
Depends: r-bioc-edger (= 3.38.4+dfsg-1)
Section: debug
Priority: optional
Description: debug symbols for r-bioc-edger
Build-Ids: 5a8c184c7de51073aca2fdb1bc1475fa2709a97c
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drwxr-xr-x root/root 0 2022-08-12 20:25 ./usr/
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lrwxrwxrwx root/root 0 2022-08-12 20:25 ./usr/share/doc/r-bioc-edger-dbgsym -> r-bioc-edger
r-bioc-edger_3.38.4+dfsg-1_armhf.deb
------------------------------------
new Debian package, version 2.0.
size 1088688 bytes: control archive=1824 bytes.
1071 bytes, 17 lines control
2540 bytes, 33 lines md5sums
Package: r-bioc-edger
Version: 3.38.4+dfsg-1
Architecture: armhf
Maintainer: Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Installed-Size: 1410
Depends: r-base-core (>= 4.2.1-2), r-api-4.0, r-api-bioc-3.15, r-bioc-limma (>= 3.41.5), r-cran-locfit, r-cran-rcpp, libblas3 | libblas.so.3, libc6 (>= 2.29), libgcc-s1 (>= 3.5), liblapack3 | liblapack.so.3, libstdc++6 (>= 5.2)
Suggests: r-cran-jsonlite, r-cran-readr, r-bioc-rhdf5, r-bioc-biobase, r-bioc-annotationdbi, r-bioc-summarizedexperiment, r-bioc-org.hs.eg.db, r-cran-statmod
Section: gnu-r
Priority: optional
Homepage: https://bioconductor.org/packages/edgeR/
Description: Empirical analysis of digital gene expression data in R
Bioconductor package for differential expression analysis of whole
transcriptome sequencing (RNA-seq) and digital gene expression
profiles with biological replication. It uses empirical Bayes
estimation and exact tests based on the negative binomial
distribution. It is also useful for differential signal analysis with
other types of genome-scale count data.
drwxr-xr-x root/root 0 2022-08-12 20:25 ./
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-rw-r--r-- root/root 2136 2022-08-12 20:25 ./usr/lib/R/site-library/edgeR/DESCRIPTION
-rw-r--r-- root/root 9001 2022-08-12 20:25 ./usr/lib/R/site-library/edgeR/INDEX
drwxr-xr-x root/root 0 2022-08-12 20:25 ./usr/lib/R/site-library/edgeR/Meta/
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-rw-r--r-- root/root 1727 2022-08-12 20:25 ./usr/lib/R/site-library/edgeR/Meta/package.rds
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-rw-r--r-- root/root 5313 2022-08-12 20:25 ./usr/lib/R/site-library/edgeR/NAMESPACE
-rw-r--r-- root/root 34181 2022-08-12 20:25 ./usr/lib/R/site-library/edgeR/NEWS.Rd
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-rw-r--r-- root/root 5852 2022-04-26 17:59 ./usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 8296
Build-Time: 370
Distribution: bookworm-staging
Host Architecture: armhf
Install-Time: 787
Job: r-bioc-edger_3.38.4+dfsg-1
Machine Architecture: armhf
Package: r-bioc-edger
Package-Time: 1176
Source-Version: 3.38.4+dfsg-1
Space: 8296
Status: successful
Version: 3.38.4+dfsg-1
--------------------------------------------------------------------------------
Finished at 2022-08-22T02:40:12Z
Build needed 00:19:36, 8296k disk space