r-bioc-genefilter →
1.60.0-1 →
armhf → 2017-11-15 05:49:15
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-02
+==============================================================================+
| r-bioc-genefilter 1.60.0-1 (armhf) Wed, 15 Nov 2017 05:38:07 +0000 |
+==============================================================================+
Package: r-bioc-genefilter
Version: 1.60.0-1
Source Version: 1.60.0-1
Distribution: buster-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/buster-staging-armhf-sbuild-bcebe21f-5f8e-442a-90fb-0b6135c0b968' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private buster-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private buster-staging/main Sources [10.3 MB]
Get:3 http://172.17.0.1/private buster-staging/main armhf Packages [12.1 MB]
Fetched 22.5 MB in 9s (2278 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: 'r-bioc-genefilter' packaging is maintained in the 'Git' version control system at:
https://anonscm.debian.org/git/debian-med/r-bioc-genefilter.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/r-bioc-genefilter.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 1438 kB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main r-bioc-genefilter 1.60.0-1 (dsc) [2199 B]
Get:2 http://172.17.0.1/private buster-staging/main r-bioc-genefilter 1.60.0-1 (tar) [1432 kB]
Get:3 http://172.17.0.1/private buster-staging/main r-bioc-genefilter 1.60.0-1 (diff) [3828 B]
Fetched 1438 kB in 0s (6050 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/r-bioc-genefilter-6Ga4rt/r-bioc-genefilter-1.60.0' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-genefilter-6Ga4rt' 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-wds7te/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-wds7te/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-wds7te/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-wds7te/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-wds7te/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-wds7te/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-wds7te/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-wds7te/apt_archive ./ Packages [430 B]
Fetched 2106 B in 0s (7798 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:
ca-certificates e2fsprogs-l10n libsasl2-modules libssl1.1 openssl
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 27 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-wds7te/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 (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 15098 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 (>= 10), dh-r, r-base-dev, r-bioc-annotationdbi, r-bioc-annotate, r-cran-survival
Filtered Build-Depends: debhelper (>= 10), dh-r, r-base-dev, r-bioc-annotationdbi, r-bioc-annotate, r-cran-survival
dpkg-deb: building package 'sbuild-build-depends-r-bioc-genefilter-dummy' in '/<<BUILDDIR>>/resolver-wds7te/apt_archive/sbuild-build-depends-r-bioc-genefilter-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-genefilter-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-wds7te/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-wds7te/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-wds7te/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-wds7te/apt_archive ./ Sources [531 B]
Get:5 copy:/<<BUILDDIR>>/resolver-wds7te/apt_archive ./ Packages [613 B]
Fetched 2477 B in 0s (8772 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install r-bioc-genefilter 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:
e2fsprogs-l10n libsasl2-modules
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cdbs dctrl-tools
debhelper dh-autoreconf dh-r dh-strip-nondeterminism file fontconfig
fontconfig-config fonts-dejavu-core gettext gettext-base gfortran gfortran-7
groff-base icu-devtools intltool-debian libarchive-zip-perl libblas-dev
libblas3 libbsd0 libbz2-dev libcairo2 libcroco3 libcurl3 libdatrie1
libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6
libgfortran-7-dev libgfortran4 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2
libharfbuzz0b libice6 libicu-dev libicu57 libjbig0 libjpeg-dev
libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 liblapack-dev liblapack3 liblzma-dev libmagic-mgc libmagic1
libncurses5-dev libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0
libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre16-3 libpcre3-dev
libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpsl5
libreadline-dev librtmp1 libsigsegv2 libsm6 libssh2-1 libssl1.0.2 libtcl8.6
libthai-data libthai0 libtiff5 libtimedate-perl libtinfo-dev libtk8.6
libtool libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1
libxdmcp6 libxext6 libxft2 libxml2 libxmuu1 libxrender1 libxss1 libxt6
littler m4 man-db pkg-config po-debconf r-base-core r-base-dev
r-bioc-annotate r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics
r-bioc-iranges r-bioc-s4vectors r-cran-bit r-cran-bit64 r-cran-bitops
r-cran-blob r-cran-dbi r-cran-digest r-cran-lattice r-cran-littler
r-cran-matrix r-cran-memoise r-cran-pkgconfig r-cran-pkgkitten r-cran-rcpp
r-cran-rcurl r-cran-rlang r-cran-rsqlite r-cran-survival r-cran-tibble
r-cran-xml r-cran-xtable ucf unzip x11-common xauth xdg-utils zip zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation devscripts debtags dh-make dwz gettext-doc libasprintf-dev
libgettextpo-dev gfortran-doc gfortran-7-doc libgfortran4-dbg
libcoarrays-dev groff liblapack-doc krb5-doc krb5-user icu-doc liblzma-doc
ncurses-doc readline-doc tcl8.6 tk8.6 libtool-doc gcj-jdk m4-doc less
www-browser libmail-box-perl ess r-doc-info | r-doc-pdf r-mathlib
r-base-html texlive-base texlive-latex-base texlive-generic-recommended
texlive-fonts-recommended texlive-fonts-extra texlive-extra-utils
texlive-latex-recommended texlive-latex-extra texinfo r-bioc-genefilter
r-bioc-biostrings r-bioc-go.db r-cran-runit r-bioc-graph r-cran-knitr
r-bioc-xvector r-bioc-genomicranges r-bioc-rsamtools
r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-shortread
r-cran-data.table r-cran-testthat r-cran-rmysql r-cran-getopt r-cran-httr
r-cran-inline r-cran-dbitest r-cran-dplyr r-cran-withr r-cran-lsmeans
r-cran-spdep r-cran-zoo
Recommended packages:
curl | wget | lynx-cur bzip2-doc libarchive-cpio-perl libglib2.0-data
shared-mime-info xdg-user-dirs krb5-locales libpng-tools publicsuffix
libltdl-dev libmail-sendmail-perl r-recommended r-doc-html
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 bsdmainutils cdbs dctrl-tools
debhelper dh-autoreconf dh-r dh-strip-nondeterminism file fontconfig
fontconfig-config fonts-dejavu-core gettext gettext-base gfortran gfortran-7
groff-base icu-devtools intltool-debian libarchive-zip-perl libblas-dev
libblas3 libbsd0 libbz2-dev libcairo2 libcroco3 libcurl3 libdatrie1
libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6
libgfortran-7-dev libgfortran4 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2
libharfbuzz0b libice6 libicu-dev libicu57 libjbig0 libjpeg-dev
libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 liblapack-dev liblapack3 liblzma-dev libmagic-mgc libmagic1
libncurses5-dev libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0
libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre16-3 libpcre3-dev
libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpsl5
libreadline-dev librtmp1 libsigsegv2 libsm6 libssh2-1 libssl1.0.2 libtcl8.6
libthai-data libthai0 libtiff5 libtimedate-perl libtinfo-dev libtk8.6
libtool libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1
libxdmcp6 libxext6 libxft2 libxml2 libxmuu1 libxrender1 libxss1 libxt6
littler m4 man-db pkg-config po-debconf r-base-core r-base-dev
r-bioc-annotate r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics
r-bioc-iranges r-bioc-s4vectors r-cran-bit r-cran-bit64 r-cran-bitops
r-cran-blob r-cran-dbi r-cran-digest r-cran-lattice r-cran-littler
r-cran-matrix r-cran-memoise r-cran-pkgconfig r-cran-pkgkitten r-cran-rcpp
r-cran-rcurl r-cran-rlang r-cran-rsqlite r-cran-survival r-cran-tibble
r-cran-xml r-cran-xtable sbuild-build-depends-r-bioc-genefilter-dummy ucf
unzip x11-common xauth xdg-utils zip zlib1g-dev
0 upgraded, 141 newly installed, 0 to remove and 27 not upgraded.
Need to get 110 MB of archives.
After this operation, 297 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-wds7te/apt_archive ./ sbuild-build-depends-r-bioc-genefilter-dummy 0.invalid.0 [904 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.3-9 [1005 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf libbsd0 armhf 0.8.6-3 [95.9 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 9.0.14 [178 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.4.2-1 [24.2 kB]
Get:6 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.7.6.1-2 [1014 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf libexpat1 armhf 2.2.3-2 [73.6 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf libfreetype6 armhf 2.8.1-0.1 [401 kB]
Get:9 http://172.17.0.1/private buster-staging/main armhf ucf all 3.0036 [70.2 kB]
Get:10 http://172.17.0.1/private buster-staging/main armhf fonts-dejavu-core all 2.37-1 [1068 kB]
Get:11 http://172.17.0.1/private buster-staging/main armhf fontconfig-config all 2.12.3-0.2 [304 kB]
Get:12 http://172.17.0.1/private buster-staging/main armhf libfontconfig1 armhf 2.12.3-0.2 [349 kB]
Get:13 http://172.17.0.1/private buster-staging/main armhf fontconfig armhf 2.12.3-0.2 [435 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf libxau6 armhf 1:1.0.8-1+b2 [19.1 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf libxcb1 armhf 1.12-1 [129 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf libx11-data all 2:1.6.4-3 [290 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf libx11-6 armhf 2:1.6.4-3 [683 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf libxext6 armhf 2:1.3.3-1+b2 [47.8 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf x11-common all 1:7.7+19 [251 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf libxss1 armhf 1:1.2.2-1 [16.8 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf libssl1.0.2 armhf 1.0.2m-3 [887 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.32-1 [225 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.32-1 [105 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.32-1 [63.7 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-4 [117 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf libkeyutils1 armhf 1.5.9-9 [11.9 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf libicu57 armhf 57.1-8 [7411 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf libxml2 armhf 2.9.4+dfsg1-5 [609 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.11-1 [29.3 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-1 [185 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20161112.1+nmu1 [74.2 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.15.1-3 [736 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-4 [434 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf cdbs all 0.4.156 [83.1 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf dctrl-tools armhf 2.24-2 [94.4 kB]
Get:38 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-2 [545 kB]
Get:39 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 14 [15.9 kB]
Get:40 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.59-1 [95.5 kB]
Get:41 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 0.040-1 [18.4 kB]
Get:42 http://172.17.0.1/private buster-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:43 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 0.040-1 [11.8 kB]
Get:44 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.54.1-1 [2653 kB]
Get:45 http://172.17.0.1/private buster-staging/main armhf libcroco3 armhf 0.6.12-1 [132 kB]
Get:46 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-4 [1218 kB]
Get:47 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:48 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:49 http://172.17.0.1/private buster-staging/main armhf debhelper all 10.10.5 [978 kB]
Get:50 http://172.17.0.1/private buster-staging/main armhf zip armhf 3.0-11 [212 kB]
Get:51 http://172.17.0.1/private buster-staging/main armhf unzip armhf 6.0-21 [149 kB]
Get:52 http://172.17.0.1/private buster-staging/main armhf libpaper1 armhf 1.1.24+nmu5 [20.8 kB]
Get:53 http://172.17.0.1/private buster-staging/main armhf libpaper-utils armhf 1.1.24+nmu5 [17.2 kB]
Get:54 http://172.17.0.1/private buster-staging/main armhf xdg-utils all 1.1.2-1 [72.7 kB]
Get:55 http://172.17.0.1/private buster-staging/main armhf libgfortran4 armhf 7.2.0-12 [191 kB]
Get:56 http://172.17.0.1/private buster-staging/main armhf libblas3 armhf 3.7.1-4 [103 kB]
Get:57 http://172.17.0.1/private buster-staging/main armhf libpixman-1-0 armhf 0.34.0-1 [451 kB]
Get:58 http://172.17.0.1/private buster-staging/main armhf libxcb-render0 armhf 1.12-1 [104 kB]
Get:59 http://172.17.0.1/private buster-staging/main armhf libxcb-shm0 armhf 1.12-1 [95.9 kB]
Get:60 http://172.17.0.1/private buster-staging/main armhf libxrender1 armhf 1:0.9.10-1 [29.9 kB]
Get:61 http://172.17.0.1/private buster-staging/main armhf libcairo2 armhf 1.15.8-2 [557 kB]
Get:62 http://172.17.0.1/private buster-staging/main armhf libkrb5support0 armhf 1.15.2-2 [58.6 kB]
Get:63 http://172.17.0.1/private buster-staging/main armhf libk5crypto3 armhf 1.15.2-2 [116 kB]
Get:64 http://172.17.0.1/private buster-staging/main armhf libkrb5-3 armhf 1.15.2-2 [263 kB]
Get:65 http://172.17.0.1/private buster-staging/main armhf libgssapi-krb5-2 armhf 1.15.2-2 [133 kB]
Get:66 http://172.17.0.1/private buster-staging/main armhf libnghttp2-14 armhf 1.27.0-1 [71.0 kB]
Get:67 http://172.17.0.1/private buster-staging/main armhf libpsl5 armhf 0.18.0-4 [42.4 kB]
Get:68 http://172.17.0.1/private buster-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-1 [54.2 kB]
Get:69 http://172.17.0.1/private buster-staging/main armhf libssh2-1 armhf 1.8.0-1 [126 kB]
Get:70 http://172.17.0.1/private buster-staging/main armhf libcurl3 armhf 7.56.1-1 [276 kB]
Get:71 http://172.17.0.1/private buster-staging/main armhf libice6 armhf 2:1.0.9-2 [51.6 kB]
Get:72 http://172.17.0.1/private buster-staging/main armhf libjpeg62-turbo armhf 1:1.5.2-2 [110 kB]
Get:73 http://172.17.0.1/private buster-staging/main armhf liblapack3 armhf 3.7.1-4 [1508 kB]
Get:74 http://172.17.0.1/private buster-staging/main armhf libthai-data all 0.1.27-1 [168 kB]
Get:75 http://172.17.0.1/private buster-staging/main armhf libdatrie1 armhf 0.2.10-5 [33.0 kB]
Get:76 http://172.17.0.1/private buster-staging/main armhf libthai0 armhf 0.1.27-1 [50.0 kB]
Get:77 http://172.17.0.1/private buster-staging/main armhf libpango-1.0-0 armhf 1.40.12-1 [179 kB]
Get:78 http://172.17.0.1/private buster-staging/main armhf libgraphite2-3 armhf 1.3.10-6 [71.5 kB]
Get:79 http://172.17.0.1/private buster-staging/main armhf libharfbuzz0b armhf 1.6.2-1 [683 kB]
Get:80 http://172.17.0.1/private buster-staging/main armhf libpangoft2-1.0-0 armhf 1.40.12-1 [72.0 kB]
Get:81 http://172.17.0.1/private buster-staging/main armhf libpangocairo-1.0-0 armhf 1.40.12-1 [61.2 kB]
Get:82 http://172.17.0.1/private buster-staging/main armhf libsm6 armhf 2:1.2.2-1+b3 [31.2 kB]
Get:83 http://172.17.0.1/private buster-staging/main armhf libtcl8.6 armhf 8.6.7+dfsg-1 [869 kB]
Get:84 http://172.17.0.1/private buster-staging/main armhf libjbig0 armhf 2.1-3.1+b2 [27.6 kB]
Get:85 http://172.17.0.1/private buster-staging/main armhf libtiff5 armhf 4.0.8-6 [219 kB]
Get:86 http://172.17.0.1/private buster-staging/main armhf libxft2 armhf 2.3.2-1+b2 [49.3 kB]
Get:87 http://172.17.0.1/private buster-staging/main armhf libtk8.6 armhf 8.6.7-1 [660 kB]
Get:88 http://172.17.0.1/private buster-staging/main armhf libxt6 armhf 1:1.1.5-1 [155 kB]
Get:89 http://172.17.0.1/private buster-staging/main armhf r-base-core armhf 3.4.2-2 [22.9 MB]
Get:90 http://172.17.0.1/private buster-staging/main armhf libgfortran-7-dev armhf 7.2.0-12 [231 kB]
Get:91 http://172.17.0.1/private buster-staging/main armhf gfortran-7 armhf 7.2.0-12 [5443 kB]
Get:92 http://172.17.0.1/private buster-staging/main armhf gfortran armhf 4:7.2.0-1d1 [1352 B]
Get:93 http://172.17.0.1/private buster-staging/main armhf libblas-dev armhf 3.7.1-4 [112 kB]
Get:94 http://172.17.0.1/private buster-staging/main armhf liblapack-dev armhf 3.7.1-4 [1564 kB]
Get:95 http://172.17.0.1/private buster-staging/main armhf libtinfo-dev armhf 6.0+20170902-1 [66.6 kB]
Get:96 http://172.17.0.1/private buster-staging/main armhf libncurses5-dev armhf 6.0+20170902-1 [151 kB]
Get:97 http://172.17.0.1/private buster-staging/main armhf libreadline-dev armhf 7.0-3 [109 kB]
Get:98 http://172.17.0.1/private buster-staging/main armhf libjpeg62-turbo-dev armhf 1:1.5.2-2 [178 kB]
Get:99 http://172.17.0.1/private buster-staging/main armhf libjpeg-dev all 1:1.5.2-2 [57.5 kB]
Get:100 http://172.17.0.1/private buster-staging/main armhf libpcre16-3 armhf 2:8.39-4 [235 kB]
Get:101 http://172.17.0.1/private buster-staging/main armhf libpcre32-3 armhf 2:8.39-4 [227 kB]
Get:102 http://172.17.0.1/private buster-staging/main armhf libpcrecpp0v5 armhf 2:8.39-4 [149 kB]
Get:103 http://172.17.0.1/private buster-staging/main armhf libpcre3-dev armhf 2:8.39-4 [565 kB]
Get:104 http://172.17.0.1/private buster-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-5 [198 kB]
Get:105 http://172.17.0.1/private buster-staging/main armhf libpng-dev armhf 1.6.34-1 [274 kB]
Get:106 http://172.17.0.1/private buster-staging/main armhf libbz2-dev armhf 1.0.6-8.1 [26.9 kB]
Get:107 http://172.17.0.1/private buster-staging/main armhf liblzma-dev armhf 5.2.2-1.3 [284 kB]
Get:108 http://172.17.0.1/private buster-staging/main armhf icu-devtools armhf 57.1-8 [156 kB]
Get:109 http://172.17.0.1/private buster-staging/main armhf libicu-dev armhf 57.1-8 [15.8 MB]
Get:110 http://172.17.0.1/private buster-staging/main armhf libxmuu1 armhf 2:1.1.2-2 [23.0 kB]
Get:111 http://172.17.0.1/private buster-staging/main armhf xauth armhf 1:1.0.9-1 [35.6 kB]
Get:112 http://172.17.0.1/private buster-staging/main armhf pkg-config armhf 0.29-4 [59.2 kB]
Get:113 http://172.17.0.1/private buster-staging/main armhf r-base-dev all 3.4.2-2 [4488 B]
Get:114 http://172.17.0.1/private buster-staging/main armhf dh-r all 20161219 [8794 B]
Get:115 http://172.17.0.1/private buster-staging/main armhf r-cran-littler armhf 0.3.2-1 [60.3 kB]
Get:116 http://172.17.0.1/private buster-staging/main armhf littler all 0.3.2-1 [12.0 kB]
Get:117 http://172.17.0.1/private buster-staging/main armhf r-bioc-biocgenerics all 0.24.0-1 [567 kB]
Get:118 http://172.17.0.1/private buster-staging/main armhf r-bioc-biobase armhf 2.38.0-1 [2024 kB]
Get:119 http://172.17.0.1/private buster-staging/main armhf r-bioc-s4vectors armhf 0.16.0-1 [1163 kB]
Get:120 http://172.17.0.1/private buster-staging/main armhf r-bioc-iranges armhf 2.12.0-1 [1466 kB]
Get:121 http://172.17.0.1/private buster-staging/main armhf r-cran-dbi armhf 0.7-1 [664 kB]
Get:122 http://172.17.0.1/private buster-staging/main armhf r-cran-bit armhf 1.1-12-1 [214 kB]
Get:123 http://172.17.0.1/private buster-staging/main armhf r-cran-bit64 armhf 0.9-7-1 [433 kB]
Get:124 http://172.17.0.1/private buster-staging/main armhf r-cran-rlang armhf 0.1.2-1 [435 kB]
Get:125 http://172.17.0.1/private buster-staging/main armhf r-cran-pkgkitten all 0.1.4-1.1 [19.0 kB]
Get:126 http://172.17.0.1/private buster-staging/main armhf r-cran-rcpp armhf 0.12.13-1 [3261 kB]
Get:127 http://172.17.0.1/private buster-staging/main armhf r-cran-tibble armhf 1.3.4-1 [167 kB]
Get:128 http://172.17.0.1/private buster-staging/main armhf r-cran-blob all 1.1.0-2 [15.3 kB]
Get:129 http://172.17.0.1/private buster-staging/main armhf r-cran-digest armhf 0.6.12-1+b1 [109 kB]
Get:130 http://172.17.0.1/private buster-staging/main armhf r-cran-memoise all 1.1.0-1 [31.8 kB]
Get:131 http://172.17.0.1/private buster-staging/main armhf r-cran-pkgconfig all 2.0.1-2 [17.0 kB]
Get:132 http://172.17.0.1/private buster-staging/main armhf r-cran-rsqlite armhf 2.0-2 [700 kB]
Get:133 http://172.17.0.1/private buster-staging/main armhf r-bioc-annotationdbi all 1.40.0-1 [4303 kB]
Get:134 http://172.17.0.1/private buster-staging/main armhf r-cran-xml armhf 3.98-1.9-1 [1667 kB]
Get:135 http://172.17.0.1/private buster-staging/main armhf r-cran-xtable all 1:1.8-2-2 [692 kB]
Get:136 http://172.17.0.1/private buster-staging/main armhf r-cran-bitops armhf 1.0-6-1 [23.6 kB]
Get:137 http://172.17.0.1/private buster-staging/main armhf r-cran-rcurl armhf 1.95-4.8-3 [616 kB]
Get:138 http://172.17.0.1/private buster-staging/main armhf r-bioc-annotate armhf 1.56.0+dfsg-1 [1946 kB]
Get:139 http://172.17.0.1/private buster-staging/main armhf r-cran-lattice armhf 0.20-35-1+b1 [723 kB]
Get:140 http://172.17.0.1/private buster-staging/main armhf r-cran-matrix armhf 1.2-11-1 [2330 kB]
Get:141 http://172.17.0.1/private buster-staging/main armhf r-cran-survival armhf 2.41-3-2 [5142 kB]
debconf: delaying package configuration, since apt-utils is not installed
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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 libssh2-1:armhf (1.8.0-1) ...
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Setting up bsdmainutils (9.0.14) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up x11-common (1:7.7+19) ...
update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
invoke-rc.d: could not determine current runlevel
All runlevel operations denied by policy
invoke-rc.d: policy-rc.d denied execution of start.
Setting up xdg-utils (1.1.2-1) ...
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Creating config file /etc/papersize with new version
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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
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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
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Setting up libharfbuzz0b:armhf (1.6.2-1) ...
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Setting up man-db (2.7.6.1-2) ...
Not building database; man-db/auto-update is not 'true'.
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Setting up liblapack-dev:armhf (3.7.1-4) ...
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 libtool (2.4.6-2) ...
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Setting up libkrb5-3:armhf (1.15.2-2) ...
Setting up libxft2:armhf (2.3.2-1+b2) ...
Setting up fontconfig (2.12.3-0.2) ...
Regenerating fonts cache... done.
Setting up libxext6:armhf (2:1.3.3-1+b2) ...
Setting up libxss1:armhf (1:1.2.2-1) ...
Setting up libgssapi-krb5-2:armhf (1.15.2-2) ...
Setting up xauth (1:1.0.9-1) ...
Setting up libpango-1.0-0:armhf (1.40.12-1) ...
Setting up libcairo2:armhf (1.15.8-2) ...
Setting up libcurl3:armhf (7.56.1-1) ...
Setting up libtk8.6:armhf (8.6.7-1) ...
Setting up libpangoft2-1.0-0:armhf (1.40.12-1) ...
Setting up libpangocairo-1.0-0:armhf (1.40.12-1) ...
Setting up r-base-core (3.4.2-2) ...
Creating config file /etc/R/Renviron with new version
Setting up r-cran-littler (0.3.2-1) ...
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Setting up r-bioc-biocgenerics (0.24.0-1) ...
Setting up r-bioc-biobase (2.38.0-1) ...
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Setting up r-cran-dbi (0.7-1) ...
Setting up r-cran-pkgkitten (0.1.4-1.1) ...
Setting up r-cran-rcpp (0.12.13-1) ...
Setting up r-cran-rcurl (1.95-4.8-3) ...
Setting up r-cran-rlang (0.1.2-1) ...
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Setting up r-cran-xtable (1:1.8-2-2) ...
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Setting up r-cran-pkgconfig (2.0.1-2) ...
Setting up r-cran-memoise (1.1.0-1) ...
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Setting up r-cran-bit64 (0.9-7-1) ...
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Setting up r-cran-lattice (0.20-35-1+b1) ...
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Setting up r-cran-rsqlite (2.0-2) ...
Setting up r-bioc-iranges (2.12.0-1) ...
Setting up r-cran-matrix (1.2-11-1) ...
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Setting up r-cran-survival (2.41-3-2) ...
Setting up r-bioc-annotate (1.56.0+dfsg-1) ...
Setting up dh-autoreconf (14) ...
Setting up dh-strip-nondeterminism (0.040-1) ...
Setting up debhelper (10.10.5) ...
Setting up dh-r (20161219) ...
Setting up sbuild-build-depends-r-bioc-genefilter-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.24-17) ...
Processing triggers for systemd (235-2) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.4.0-79-generic armhf (armv8l)
Toolchain package versions: binutils_2.29.1-6+rpi1 dpkg-dev_1.19.0.4 g++-7_7.2.0-12 gcc-7_7.2.0-12 libc6-dev_2.24-17 libstdc++-7-dev_7.2.0-12 libstdc++6_7.2.0-12 linux-libc-dev_4.9.51-1+rpi3+b1
Package versions: adduser_3.116 apt_1.6~alpha3 autoconf_2.69-11 automake_1:1.15.1-3 autopoint_0.19.8.1-4 autotools-dev_20161112.1+nmu1 base-files_10+rpi1 base-passwd_3.5.44 bash_4.4-5 binutils_2.29.1-6+rpi1 binutils-arm-linux-gnueabihf_2.29.1-6+rpi1 binutils-common_2.29.1-6+rpi1 bsdmainutils_9.0.14 bsdutils_1:2.30.2-0.1 build-essential_12.4 bzip2_1.0.6-8.1 ca-certificates_20170717 cdbs_0.4.156 coreutils_8.28-1 cpio_2.11+dfsg-6 cpp_4:7.2.0-1d1 cpp-7_7.2.0-12 dash_0.5.8-2.5 dctrl-tools_2.24-2 debconf_1.5.64 debhelper_10.10.5 debianutils_4.8.2 dh-autoreconf_14 dh-r_20161219 dh-strip-nondeterminism_0.040-1 diffutils_1:3.6-1 dirmngr_2.2.1-5 dmsetup_2:1.02.142-1 dpkg_1.19.0.4 dpkg-dev_1.19.0.4 e2fslibs_1.43.7-1 e2fsprogs_1.43.7-1 e2fsprogs-l10n_1.43.7-1 fakeroot_1.22-1 fdisk_2.30.2-0.1 file_1:5.32-1 findutils_4.6.0+git+20170729-2 fontconfig_2.12.3-0.2 fontconfig-config_2.12.3-0.2 fonts-dejavu-core_2.37-1 g++_4:7.2.0-1d1 g++-7_7.2.0-12 gcc_4:7.2.0-1d1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-14 gcc-5-base_5.4.1-4 gcc-7_7.2.0-12 gcc-7-base_7.2.0-12 gettext_0.19.8.1-4 gettext-base_0.19.8.1-4 gfortran_4:7.2.0-1d1 gfortran-7_7.2.0-12 gnupg_2.2.1-5 gnupg-agent_2.2.1-5 gnupg-l10n_2.2.1-5 gnupg-utils_2.2.1-5 gpg_2.2.1-5 gpg-agent_2.2.1-5 gpg-wks-client_2.2.1-5 gpg-wks-server_2.2.1-5 gpgconf_2.2.1-5 gpgsm_2.2.1-5 gpgv_2.2.1-5 grep_3.1-2 groff-base_1.22.3-9 gzip_1.6-5 hostname_3.18 icu-devtools_57.1-8 init-system-helpers_1.51 initramfs-tools_0.130 initramfs-tools-core_0.130 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-9+rpi1 kmod_24-1 libacl1_2.2.52-3 libapparmor1_2.11.1-2 libapt-pkg5.0_1.6~alpha3 libarchive-zip-perl_1.59-1 libasan4_7.2.0-12 libassuan0_2.4.3-3 libatomic1_7.2.0-12 libattr1_1:2.4.47-2 libaudit-common_1:2.8.1-1 libaudit1_1:2.8.1-1 libbinutils_2.29.1-6+rpi1 libblas-dev_3.7.1-4 libblas3_3.7.1-4 libblkid1_2.30.2-0.1 libbsd0_0.8.6-3 libbz2-1.0_1.0.6-8.1 libbz2-dev_1.0.6-8.1 libc-bin_2.24-17 libc-dev-bin_2.24-17 libc6_2.24-17 libc6-dev_2.24-17 libcairo2_1.15.8-2 libcap-ng0_0.7.7-3.1+b1 libcap2_1:2.25-1.1 libcc1-0_7.2.0-12 libcilkrts5_7.2.0-12 libcomerr2_1.43.7-1 libcroco3_0.6.12-1 libcryptsetup4_2:1.7.5-1 libcurl3_7.56.1-1 libdatrie1_0.2.10-5 libdb5.3_5.3.28-13.1 libdbus-1-3_1.11.22-1 libdebconfclient0_0.232 libdevmapper1.02.1_2:1.02.142-1 libdpkg-perl_1.19.0.4 libdrm-common_2.4.84-2+rpi1 libdrm2_2.4.84-2+rpi1 libexpat1_2.2.3-2 libfakeroot_1.22-1 libfdisk1_2.30.2-0.1 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.040-1 libfontconfig1_2.12.3-0.2 libfreetype6_2.8.1-0.1 libgcc-7-dev_7.2.0-12 libgcc1_1:7.2.0-12 libgcrypt20_1.7.9-1 libgdbm3_1.8.3-14 libgfortran-7-dev_7.2.0-12 libgfortran4_7.2.0-12 libglib2.0-0_2.54.1-1 libgmp10_2:6.1.2+dfsg-1.1 libgnutls30_3.5.16-1 libgomp1_7.2.0-12 libgpg-error0_1.27-4 libgraphite2-3_1.3.10-6 libgssapi-krb5-2_1.15.2-2 libharfbuzz0b_1.6.2-1 libhogweed4_3.3-2 libice6_2:1.0.9-2 libicu-dev_57.1-8 libicu57_57.1-8 libidn11_1.33-2 libidn2-0_2.0.2-5 libip4tc0_1.6.1-2+b1 libisl15_0.18-1 libjbig0_2.1-3.1+b2 libjpeg-dev_1:1.5.2-2 libjpeg62-turbo_1:1.5.2-2 libjpeg62-turbo-dev_1:1.5.2-2 libk5crypto3_1.15.2-2 libkeyutils1_1.5.9-9 libklibc_2.0.4-9+rpi1 libkmod2_24-1 libkrb5-3_1.15.2-2 libkrb5support0_1.15.2-2 libksba8_1.3.5-2 liblapack-dev_3.7.1-4 liblapack3_3.7.1-4 libldap-2.4-2_2.4.45+dfsg-1 libldap-common_2.4.45+dfsg-1 liblz4-1_0.0~r131-2 liblzma-dev_5.2.2-1.3 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.32-1 libmagic1_1:5.32-1 libmount1_2.30.2-0.1 libmpc3_1.0.3-2 libmpfr4_3.1.6-1 libncurses5_6.0+20170902-1 libncurses5-dev_6.0+20170902-1 libncursesw5_6.0+20170902-1 libnettle6_3.3-2 libnghttp2-14_1.27.0-1 libnih-dbus1_1.0.3-8 libnih1_1.0.3-8 libnpth0_1.5-2 libp11-kit0_0.23.9-2 libpam-modules_1.1.8-3.6 libpam-modules-bin_1.1.8-3.6 libpam-runtime_1.1.8-3.6 libpam0g_1.1.8-3.6 libpango-1.0-0_1.40.12-1 libpangocairo-1.0-0_1.40.12-1 libpangoft2-1.0-0_1.40.12-1 libpaper-utils_1.1.24+nmu5 libpaper1_1.1.24+nmu5 libpcre16-3_2:8.39-4 libpcre3_2:8.39-4 libpcre3-dev_2:8.39-4 libpcre32-3_2:8.39-4 libpcrecpp0v5_2:8.39-4 libperl5.24_5.24.1-7 libperl5.26_5.26.1-2 libpipeline1_1.4.2-1 libpixman-1-0_0.34.0-1 libplymouth4_0.9.3-1 libpng-dev_1.6.34-1 libpng16-16_1.6.34-1 libprocps6_2:3.3.12-3 libpsl5_0.18.0-4 libreadline-dev_7.0-3 libreadline7_7.0-3 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.27~101-g0780600+dfsg-3 libsasl2-modules_2.1.27~101-g0780600+dfsg-3 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3 libseccomp2_2.3.1-2.1 libselinux1_2.7-2 libsemanage-common_2.7-2 libsemanage1_2.7-2 libsepol1_2.7-1 libsigsegv2_2.11-1 libsm6_2:1.2.2-1+b3 libsmartcols1_2.30.2-0.1 libsqlite3-0_3.20.1-2 libss2_1.43.7-1 libssh2-1_1.8.0-1 libssl1.0.2_1.0.2m-3 libssl1.1_1.1.0f-5 libstdc++-7-dev_7.2.0-12 libstdc++6_7.2.0-12 libsystemd0_235-2 libtasn1-6_4.12-2.1 libtcl8.6_8.6.7+dfsg-1 libthai-data_0.1.27-1 libthai0_0.1.27-1 libtiff5_4.0.8-6 libtimedate-perl_2.3000-2 libtinfo-dev_6.0+20170902-1 libtinfo5_6.0+20170902-1 libtk8.6_8.6.7-1 libtool_2.4.6-2 libubsan0_7.2.0-12 libudev1_235-2 libunistring2_0.9.7-2 libustr-1.0-1_1.0.4-6 libuuid1_2.30.2-0.1 libx11-6_2:1.6.4-3 libx11-data_2:1.6.4-3 libxau6_1:1.0.8-1+b2 libxcb-render0_1.12-1 libxcb-shm0_1.12-1 libxcb1_1.12-1 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1+b2 libxft2_2.3.2-1+b2 libxml2_2.9.4+dfsg1-5 libxmuu1_2:1.1.2-2 libxrender1_1:0.9.10-1 libxss1_1:1.2.2-1 libxt6_1:1.1.5-1 linux-base_4.5 linux-libc-dev_4.9.51-1+rpi3+b1 littler_0.3.2-1 login_1:4.5-1 lsb-base_9.20170808+rpi1 m4_1.4.18-1 make_4.1-9.1 makedev_2.3.1-93 man-db_2.7.6.1-2 mawk_1.3.3-17 mount_2.30.2-0.1 mountall_2.54 multiarch-support_2.24-17 ncurses-base_6.0+20170902-1 ncurses-bin_6.0+20170902-1 openssl_1.1.0f-5 passwd_1:4.5-1 patch_2.7.5-1 perl_5.26.1-2 perl-base_5.26.1-2 perl-modules-5.24_5.24.1-7 perl-modules-5.26_5.26.1-2 pinentry-curses_1.0.0-3 pkg-config_0.29-4 plymouth_0.9.3-1 po-debconf_1.0.20 procps_2:3.3.12-3 r-base-core_3.4.2-2 r-base-dev_3.4.2-2 r-bioc-annotate_1.56.0+dfsg-1 r-bioc-annotationdbi_1.40.0-1 r-bioc-biobase_2.38.0-1 r-bioc-biocgenerics_0.24.0-1 r-bioc-iranges_2.12.0-1 r-bioc-s4vectors_0.16.0-1 r-cran-bit_1.1-12-1 r-cran-bit64_0.9-7-1 r-cran-bitops_1.0-6-1 r-cran-blob_1.1.0-2 r-cran-dbi_0.7-1 r-cran-digest_0.6.12-1+b1 r-cran-lattice_0.20-35-1+b1 r-cran-littler_0.3.2-1 r-cran-matrix_1.2-11-1 r-cran-memoise_1.1.0-1 r-cran-pkgconfig_2.0.1-2 r-cran-pkgkitten_0.1.4-1.1 r-cran-rcpp_0.12.13-1 r-cran-rcurl_1.95-4.8-3 r-cran-rlang_0.1.2-1 r-cran-rsqlite_2.0-2 r-cran-survival_2.41-3-2 r-cran-tibble_1.3.4-1 r-cran-xml_3.98-1.9-1 r-cran-xtable_1:1.8-2-2 raspbian-archive-keyring_20120528.2 readline-common_7.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-genefilter-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.10 systemd_235-2 sysvinit-utils_2.88dsf-59.10 tar_1.29b-2 tzdata_2017c-1 ucf_3.0036 udev_235-2 unzip_6.0-21 util-linux_2.30.2-0.1 x11-common_1:7.7+19 xauth_1:1.0.9-1 xdg-utils_1.1.2-1 xz-utils_5.2.2-1.3 zip_3.0-11 zlib1g_1:1.2.8.dfsg-5 zlib1g-dev_1:1.2.8.dfsg-5
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Fri Nov 10 08:40:35 2017 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 ./r-bioc-genefilter_1.60.0-1.dsc
dpkg-source: info: extracting r-bioc-genefilter in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking r-bioc-genefilter_1.60.0.orig.tar.gz
dpkg-source: info: unpacking r-bioc-genefilter_1.60.0-1.debian.tar.xz
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=buster-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=buster-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=buster-staging-armhf-sbuild-bcebe21f-5f8e-442a-90fb-0b6135c0b968
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package r-bioc-genefilter
dpkg-buildpackage: info: source version 1.60.0-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build r-bioc-genefilter-1.60.0
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --buildsystem R
dh_testdir -O--buildsystem=R
dh_auto_clean -O--buildsystem=R
dh_autoreconf_clean -O--buildsystem=R
dh_clean -O--buildsystem=R
debian/rules build-arch
dh build-arch --buildsystem R
dh_testdir -a -O--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
fakeroot debian/rules binary-arch
dh binary-arch --buildsystem R
dh_testroot -a -O--buildsystem=R
dh_prep -a -O--buildsystem=R
dh_installdirs -a -O--buildsystem=R
dh_auto_install -a -O--buildsystem=R
I: R Package: genefilter Version: 1.60.0
I: Building using R version 3.4.2-2
I: R API version: r-api-3.4
I: Using built-time from d/changelog: Fri, 10 Nov 2017 09:37:54 +0100
mkdir -p /<<PKGBUILDDIR>>/debian/r-bioc-genefilter/usr/lib/R/site-library
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-genefilter/usr/lib/R/site-library --clean . "--built-timestamp='Fri, 10 Nov 2017 09:37:54 +0100'"
* installing *source* package 'genefilter' ...
** libs
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-bsBMFt/r-base-3.4.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c half_range_mode.cpp -o half_range_mode.o
In file included from /usr/include/c++/7/vector:69:0,
from half_range_mode.cpp:3:
/usr/include/c++/7/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/7/bits/vector.tcc:394:7: note: parameter passing for argument of type 'std::vector<double>::iterator {aka __gnu_cxx::__normal_iterator<double*, std::vector<double> >}' changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/7/bits/vector.tcc: In function 'double half_range_mode(double*, double*, double, int)':
/usr/include/c++/7/bits/vector.tcc:105:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-bsBMFt/r-base-3.4.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-bsBMFt/r-base-3.4.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c nd.c -o nd.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-bsBMFt/r-base-3.4.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pAUC.c -o pAUC.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-bsBMFt/r-base-3.4.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rowPAUCs.c -o rowPAUCs.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-bsBMFt/r-base-3.4.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rowttests.c -o rowttests.o
gfortran -fpic -g -O2 -fdebug-prefix-map=/build/r-base-bsBMFt/r-base-3.4.2=. -fstack-protector-strong -c ttest.f -o ttest.o
g++ -shared -L/usr/lib/R/lib -Wl,-z,relro -o genefilter.so half_range_mode.o init.o nd.o pAUC.o rowPAUCs.o rowttests.o ttest.o -lgfortran -lm -L/usr/lib/R/lib -lR
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
installing to /<<PKGBUILDDIR>>/debian/r-bioc-genefilter/usr/lib/R/site-library/genefilter/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (genefilter)
Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 290.
Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 291.
Use of uninitialized value $dep_line in split at /usr/share/perl5/Dpkg/Deps.pm line 294.
Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 290.
Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 291.
Use of uninitialized value $dep_line in split at /usr/share/perl5/Dpkg/Deps.pm line 294.
I: Using r-cran-class for Suggests:class
W: Cannot find a debian package for Suggests:hgu95av2.db
W: Cannot find a debian package for Suggests:tkWidgets
W: Cannot find a debian package for Suggests:ALL
W: Cannot find a debian package for Suggests:ROC
W: Cannot find a debian package for Suggests:DESeq
W: Cannot find a debian package for Suggests:pasilla
W: Cannot find a debian package for Suggests:BiocStyle
I: Using r-cran-knitr for Suggests:knitr
I: Using r-bioc-s4vectors for Imports:S4Vectors (>= 0.9.42)
I: Using r-bioc-annotationdbi for Imports:AnnotationDbi
I: Using r-bioc-annotate for Imports:annotate
I: Using r-bioc-biobase for Imports:Biobase
I: Using r-cran-survival for Imports:survival
dh_install -a -O--buildsystem=R
dh_installdocs -a -O--buildsystem=R
dh_installchangelogs -a -O--buildsystem=R
dh_installexamples -a -O--buildsystem=R
dh_installman -a -O--buildsystem=R
dh_installcatalogs -a -O--buildsystem=R
dh_installcron -a -O--buildsystem=R
dh_installdebconf -a -O--buildsystem=R
dh_installemacsen -a -O--buildsystem=R
dh_installifupdown -a -O--buildsystem=R
dh_installinfo -a -O--buildsystem=R
dh_systemd_enable -a -O--buildsystem=R
dh_installinit -a -O--buildsystem=R
dh_systemd_start -a -O--buildsystem=R
dh_installmenu -a -O--buildsystem=R
dh_installmime -a -O--buildsystem=R
dh_installmodules -a -O--buildsystem=R
dh_installlogcheck -a -O--buildsystem=R
dh_installlogrotate -a -O--buildsystem=R
dh_installpam -a -O--buildsystem=R
dh_installppp -a -O--buildsystem=R
dh_installudev -a -O--buildsystem=R
dh_installgsettings -a -O--buildsystem=R
dh_bugfiles -a -O--buildsystem=R
dh_ucf -a -O--buildsystem=R
dh_lintian -a -O--buildsystem=R
dh_gconf -a -O--buildsystem=R
dh_icons -a -O--buildsystem=R
dh_perl -a -O--buildsystem=R
dh_usrlocal -a -O--buildsystem=R
dh_link -a -O--buildsystem=R
dh_installwm -a -O--buildsystem=R
dh_installxfonts -a -O--buildsystem=R
dh_strip_nondeterminism -a -O--buildsystem=R
dh_compress -a -O--buildsystem=R
dh_fixperms -a -O--buildsystem=R
dh_missing -a -O--buildsystem=R
dh_strip -a -O--buildsystem=R
dh_makeshlibs -a -O--buildsystem=R
dh_shlibdeps -a -O--buildsystem=R
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-bioc-genefilter/usr/lib/R/site-library/genefilter/libs/genefilter.so was not linked against libgfortran.so.4 (it uses none of the library's symbols)
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-genefilter-dbgsym' in '../r-bioc-genefilter-dbgsym_1.60.0-1_armhf.deb'.
dpkg-deb: building package 'r-bioc-genefilter' in '../r-bioc-genefilter_1.60.0-1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../r-bioc-genefilter_1.60.0-1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build r-bioc-genefilter-1.60.0
dpkg-buildpackage: info: binary-only upload (no source included)
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Build finished at 2017-11-15T05:49:12Z
Finished
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I: Built successfully
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| Changes |
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r-bioc-genefilter_1.60.0-1_armhf.changes:
-----------------------------------------
Format: 1.8
Date: Fri, 10 Nov 2017 09:37:54 +0100
Source: r-bioc-genefilter
Binary: r-bioc-genefilter
Architecture: armhf
Version: 1.60.0-1
Distribution: buster-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
r-bioc-genefilter - methods for filtering genes from microarray experiments
Changes:
r-bioc-genefilter (1.60.0-1) unstable; urgency=medium
.
* New upstream version
* Secure URI in watch file
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| Package contents |
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r-bioc-genefilter-dbgsym_1.60.0-1_armhf.deb
-------------------------------------------
new Debian package, version 2.0.
size 43076 bytes: control archive=544 bytes.
411 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: r-bioc-genefilter-dbgsym
Source: r-bioc-genefilter
Version: 1.60.0-1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 57
Depends: r-bioc-genefilter (= 1.60.0-1)
Section: debug
Priority: optional
Description: debug symbols for r-bioc-genefilter
Build-Ids: 65fed640fd3ebc835cc17887c4ccad86ba314430
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lrwxrwxrwx root/root 0 2017-11-10 08:37 ./usr/share/doc/r-bioc-genefilter-dbgsym -> r-bioc-genefilter
r-bioc-genefilter_1.60.0-1_armhf.deb
------------------------------------
new Debian package, version 2.0.
size 1577968 bytes: control archive=2112 bytes.
742 bytes, 13 lines control
4765 bytes, 54 lines md5sums
Package: r-bioc-genefilter
Version: 1.60.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1787
Depends: r-base-core (>= 3.4.2-2), r-api-3.4, r-bioc-s4vectors (>= 0.9.42), r-bioc-annotationdbi, r-bioc-annotate, r-bioc-biobase, r-cran-survival, libc6 (>= 2.4), libgcc1 (>= 1:3.5), libgfortran4 (>= 7), libstdc++6 (>= 4.3.0)
Suggests: r-cran-class, r-cran-knitr
Section: gnu-r
Priority: optional
Homepage: https://bioconductor.org/packages/genefilter/
Description: methods for filtering genes from microarray experiments
This BioConductor module provides methods for filtering genes from microarray
experiments. It contains some basic functions for filtering genes.
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| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
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| Summary |
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Build Architecture: armhf
Build-Space: 5712
Build-Time: 47
Distribution: buster-staging
Host Architecture: armhf
Install-Time: 601
Job: r-bioc-genefilter_1.60.0-1
Machine Architecture: armhf
Package: r-bioc-genefilter
Package-Time: 665
Source-Version: 1.60.0-1
Space: 5712
Status: successful
Version: 1.60.0-1
--------------------------------------------------------------------------------
Finished at 2017-11-15T05:49:12Z
Build needed 00:11:05, 5712k disk space