r-bioc-affy →
1.56.0-1 →
armhf → 2017-11-13 05:30:02
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-04
+==============================================================================+
| r-bioc-affy 1.56.0-1 (armhf) Mon, 13 Nov 2017 05:16:49 +0000 |
+==============================================================================+
Package: r-bioc-affy
Version: 1.56.0-1
Source Version: 1.56.0-1
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-bf8e448c-6b5f-44fe-936d-4678f7426ac7' 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 [12.2 MB]
Fetched 22.5 MB in 24s (903 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
W: http: aptMethod::Configuration: could not load seccomp policy: Invalid argument
W: store: aptMethod::Configuration: could not load seccomp policy: Invalid argument
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'r-bioc-affy' packaging is maintained in the 'Git' version control system at:
https://anonscm.debian.org/git/debian-med/r-bioc-affy.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/r-bioc-affy.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 1324 kB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main r-bioc-affy 1.56.0-1 (dsc) [2195 B]
Get:2 http://172.17.0.1/private buster-staging/main r-bioc-affy 1.56.0-1 (tar) [1317 kB]
Get:3 http://172.17.0.1/private buster-staging/main r-bioc-affy 1.56.0-1 (diff) [4792 B]
Fetched 1324 kB in 0s (5159 kB/s)
Download complete and in download only mode
W: http: aptMethod::Configuration: could not load seccomp policy: Invalid argument
I: NOTICE: Log filtering will replace 'build/r-bioc-affy-VAK9Nf/r-bioc-affy-1.56.0' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-affy-VAK9Nf' 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-bhh4Jv/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-bhh4Jv/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-bhh4Jv/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive ./ Packages [432 B]
Fetched 2108 B in 0s (3226 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
W: copy: aptMethod::Configuration: could not load seccomp policy: Invalid argument
W: store: aptMethod::Configuration: could not load seccomp policy: Invalid argument
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 13 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-bhh4Jv/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
W: copy: aptMethod::Configuration: could not load seccomp policy: Invalid argument
+------------------------------------------------------------------------------+
| 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-biobase (>= 2.26.0), r-bioc-affyio (>= 1.34.0), r-bioc-biocinstaller (>= 1.16.0), r-bioc-preprocesscore (>= 1.28.0)
Filtered Build-Depends: debhelper (>= 10), dh-r, r-base-dev, r-bioc-biobase (>= 2.26.0), r-bioc-affyio (>= 1.34.0), r-bioc-biocinstaller (>= 1.16.0), r-bioc-preprocesscore (>= 1.28.0)
dpkg-deb: building package 'sbuild-build-depends-r-bioc-affy-dummy' in '/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive/sbuild-build-depends-r-bioc-affy-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-affy-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-bhh4Jv/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive ./ Sources [552 B]
Get:5 copy:/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive ./ Packages [636 B]
Fetched 2521 B in 0s (4044 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
W: copy: aptMethod::Configuration: could not load seccomp policy: Invalid argument
W: store: aptMethod::Configuration: could not load seccomp policy: Invalid argument
Reading package lists...
Install r-bioc-affy 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 m4
man-db pkg-config po-debconf r-base-core r-base-dev r-bioc-affyio
r-bioc-biobase r-bioc-biocgenerics r-bioc-biocinstaller
r-bioc-preprocesscore 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-cran-runit
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 m4
man-db pkg-config po-debconf r-base-core r-base-dev r-bioc-affyio
r-bioc-biobase r-bioc-biocgenerics r-bioc-biocinstaller
r-bioc-preprocesscore sbuild-build-depends-r-bioc-affy-dummy ucf unzip
x11-common xauth xdg-utils zip zlib1g-dev
0 upgraded, 119 newly installed, 0 to remove and 13 not upgraded.
Need to get 83.7 MB of archives.
After this operation, 246 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-bhh4Jv/apt_archive ./ sbuild-build-depends-r-bioc-affy-dummy 0.invalid.0 [924 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-bioc-affyio armhf 1.46.0-1 [65.7 kB]
Get:116 http://172.17.0.1/private buster-staging/main armhf r-bioc-biocgenerics all 0.24.0-1 [567 kB]
Get:117 http://172.17.0.1/private buster-staging/main armhf r-bioc-biobase armhf 2.36.2-1 [2024 kB]
Get:118 http://172.17.0.1/private buster-staging/main armhf r-bioc-biocinstaller all 1.26.1-2 [60.0 kB]
Get:119 http://172.17.0.1/private buster-staging/main armhf r-bioc-preprocesscore armhf 1.38.1-1 [109 kB]
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Setting up cdbs (0.4.156) ...
Setting up libexpat1:armhf (2.2.3-2) ...
Setting up libbz2-dev:armhf (1.0.6-8.1) ...
Setting up libjpeg62-turbo:armhf (1:1.5.2-2) ...
Setting up libarchive-zip-perl (1.59-1) ...
Setting up libnghttp2-14:armhf (1.27.0-1) ...
Setting up libgfortran4:armhf (7.2.0-12) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up libjbig0:armhf (2.1-3.1+b2) ...
Setting up libsigsegv2:armhf (2.11-1) ...
Setting up fonts-dejavu-core (2.37-1) ...
Setting up libpsl5:armhf (0.18.0-4) ...
Setting up groff-base (1.22.3-9) ...
Setting up libglib2.0-0:armhf (2.54.1-1) ...
No schema files found: doing nothing.
Setting up unzip (6.0-21) ...
Setting up libtinfo-dev:armhf (6.0+20170902-1) ...
Setting up dctrl-tools (2.24-2) ...
Setting up libdatrie1:armhf (0.2.10-5) ...
Setting up libtiff5:armhf (4.0.8-6) ...
Setting up gettext-base (0.19.8.1-4) ...
Setting up libpipeline1:armhf (1.4.2-1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-1) ...
Setting up m4 (1.4.18-1) ...
Setting up libicu57:armhf (57.1-8) ...
Setting up libbsd0:armhf (0.8.6-3) ...
Setting up ucf (3.0036) ...
Setting up libxml2:armhf (2.9.4+dfsg1-5) ...
Setting up zip (3.0-11) ...
Setting up libfreetype6:armhf (2.8.1-0.1) ...
Setting up libmagic-mgc (1:5.32-1) ...
Setting up libmagic1:armhf (1:5.32-1) ...
Setting up libgraphite2-3:armhf (1.3.10-6) ...
Setting up libcroco3:armhf (0.6.12-1) ...
Setting up libncurses5-dev:armhf (6.0+20170902-1) ...
Setting up libssl1.0.2:armhf (1.0.2m-3) ...
Setting up pkg-config (0.29-4) ...
Setting up libpixman-1-0:armhf (0.34.0-1) ...
Setting up libblas3:armhf (3.7.1-4) ...
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) ...
Processing triggers for libc-bin (2.24-17) ...
Setting up autotools-dev (20161112.1+nmu1) ...
Processing triggers for systemd (235-2) ...
Setting up libgfortran-7-dev:armhf (7.2.0-12) ...
Setting up libreadline-dev:armhf (7.0-3) ...
Setting up gfortran-7 (7.2.0-12) ...
Setting up libpcrecpp0v5:armhf (2:8.39-4) ...
Setting up libpcre32-3:armhf (2:8.39-4) ...
Setting up icu-devtools (57.1-8) ...
Setting up libpcre16-3:armhf (2:8.39-4) ...
Setting up libtcl8.6:armhf (8.6.7+dfsg-1) ...
Setting up libthai-data (0.1.27-1) ...
Setting up libjpeg62-turbo-dev:armhf (1:1.5.2-2) ...
Setting up liblzma-dev:armhf (5.2.2-1.3) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up libkeyutils1:armhf (1.5.9-9) ...
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) ...
Setting up libx11-data (2:1.6.4-3) ...
Setting up libxau6:armhf (1:1.0.8-1+b2) ...
Setting up autopoint (0.19.8.1-4) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-5) ...
Setting up libfile-stripnondeterminism-perl (0.040-1) ...
Setting up libpaper1:armhf (1.1.24+nmu5) ...
Creating config file /etc/papersize with new version
Setting up gfortran (4:7.2.0-1d1) ...
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 libpaper-utils (1.1.24+nmu5) ...
Setting up libpcre3-dev:armhf (2:8.39-4) ...
Setting up fontconfig-config (2.12.3-0.2) ...
Setting up gettext (0.19.8.1-4) ...
Setting up libblas-dev:armhf (3.7.1-4) ...
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 liblapack3:armhf (3.7.1-4) ...
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 libharfbuzz0b:armhf (1.6.2-1) ...
Setting up autoconf (2.69-11) ...
Setting up libthai0:armhf (0.1.27-1) ...
Setting up libicu-dev (57.1-8) ...
Setting up file (1:5.32-1) ...
Setting up libkrb5support0:armhf (1.15.2-2) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up libjpeg-dev (1:1.5.2-2) ...
Setting up automake (1:1.15.1-3) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up libice6:armhf (2:1.0.9-2) ...
Setting up man-db (2.7.6.1-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libpng-dev:armhf (1.6.34-1) ...
Setting up libxcb1:armhf (1.12-1) ...
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) ...
Setting up libfontconfig1:armhf (2.12.3-0.2) ...
Setting up libsm6:armhf (2:1.2.2-1+b3) ...
Setting up libk5crypto3:armhf (1.15.2-2) ...
Setting up libxcb-render0:armhf (1.12-1) ...
Setting up po-debconf (1.0.20) ...
Setting up libx11-6:armhf (2:1.6.4-3) ...
Setting up libxmuu1:armhf (2:1.1.2-2) ...
Setting up libxcb-shm0:armhf (1.12-1) ...
Setting up libxt6:armhf (1:1.1.5-1) ...
Setting up libxrender1:armhf (1:0.9.10-1) ...
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-base-dev (3.4.2-2) ...
Setting up r-bioc-biocgenerics (0.24.0-1) ...
Setting up r-bioc-biobase (2.36.2-1) ...
Setting up r-bioc-preprocesscore (1.38.1-1) ...
Setting up r-bioc-biocinstaller (1.26.1-2) ...
Setting up r-bioc-affyio (1.46.0-1) ...
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-affy-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
W: http: aptMethod::Configuration: could not load seccomp policy: Invalid argument
W: copy: aptMethod::Configuration: could not load seccomp policy: Invalid argument
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 3.19.0-trunk-armmp armhf (armv7l)
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 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-affyio_1.46.0-1 r-bioc-biobase_2.36.2-1 r-bioc-biocgenerics_0.24.0-1 r-bioc-biocinstaller_1.26.1-2 r-bioc-preprocesscore_1.38.1-1 raspbian-archive-keyring_20120528.2 readline-common_7.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-affy-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 Wed Nov 8 12:31:53 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-affy_1.56.0-1.dsc
dpkg-source: info: extracting r-bioc-affy in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking r-bioc-affy_1.56.0.orig.tar.gz
dpkg-source: info: unpacking r-bioc-affy_1.56.0-1.debian.tar.xz
dpkg-source: info: applying use_debian_packaged_zlib.patch
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=buster-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=buster-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=buster-staging-armhf-sbuild-bf8e448c-6b5f-44fe-936d-4678f7426ac7
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package r-bioc-affy
dpkg-buildpackage: info: source version 1.56.0-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build r-bioc-affy-1.56.0
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: affy Version: 1.56.0
I: Building using R version 3.4.2-2
I: R API version: r-api-3.4
I: Using built-time from d/changelog: Wed, 08 Nov 2017 13:27:05 +0100
mkdir -p /<<PKGBUILDDIR>>/debian/r-bioc-affy/usr/lib/R/site-library
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-affy/usr/lib/R/site-library --clean . "--built-timestamp='Wed, 08 Nov 2017 13:27:05 +0100'"
* installing *source* package 'affy' ...
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for main in -lz... yes
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking if zlib version >= 1.1.3... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -I"/usr/lib/R/site-library/preprocessCore/include" -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -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 chipbackground.c -o chipbackground.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -I"/usr/lib/R/site-library/preprocessCore/include" -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -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 getall_locations.c -o getall_locations.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -I"/usr/lib/R/site-library/preprocessCore/include" -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -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 mas5calls.c -o mas5calls.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -I"/usr/lib/R/site-library/preprocessCore/include" -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -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 rma2.c -o rma2.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -I"/usr/lib/R/site-library/preprocessCore/include" -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -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 rma_common.c -o rma_common.o
gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-z,relro -o affy.so chipbackground.o getall_locations.o mas5calls.o rma2.o rma_common.o -lz -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-affy/usr/lib/R/site-library/affy/libs
** R
** data
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (affy)
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.
W: Ignoring specified R dependency: R (>= 2.8.0)
I: Using r-bioc-biocgenerics for Depends:BiocGenerics (>= 0.1.12)
I: Using r-bioc-biobase for Depends:Biobase (>= 2.5.5)
W: Cannot find a debian package for Suggests:tkWidgets (>= 1.19.0)
W: Cannot find a debian package for Suggests:affydata
W: Cannot find a debian package for Suggests:widgetTools
I: Using r-bioc-affyio for Imports:affyio (>= 1.13.3)
I: Using r-bioc-biocinstaller for Imports:BiocInstaller
I: Using r-bioc-preprocesscore for Imports:preprocessCore
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-affy/usr/lib/R/site-library/affy/libs/affy.so was not linked against libz.so.1 (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-affy-dbgsym' in '../r-bioc-affy-dbgsym_1.56.0-1_armhf.deb'.
dpkg-deb: building package 'r-bioc-affy' in '../r-bioc-affy_1.56.0-1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../r-bioc-affy_1.56.0-1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build r-bioc-affy-1.56.0
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2017-11-13T05:28:28Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
r-bioc-affy_1.56.0-1_armhf.changes:
-----------------------------------
Format: 1.8
Date: Wed, 08 Nov 2017 13:27:05 +0100
Source: r-bioc-affy
Binary: r-bioc-affy
Architecture: armhf
Version: 1.56.0-1
Distribution: buster-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
r-bioc-affy - BioConductor methods for Affymetrix Oligonucleotide Arrays
Changes:
r-bioc-affy (1.56.0-1) unstable; urgency=medium
.
* New upstream version
* Moved packaging from SVN to Git
* Standards-Version: 4.1.1
Checksums-Sha1:
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6cc91750c12ac3fac42bdd41c5528407a04c0bf5 7351 r-bioc-affy_1.56.0-1_armhf.buildinfo
a672899fbd3cdcea14dc0ce7175be4da9c03a094 1415824 r-bioc-affy_1.56.0-1_armhf.deb
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7d5af145e5b3efd5aab6fd21e3ecb1d05f14a02196c39062f452f635cfe0cdaf 7351 r-bioc-affy_1.56.0-1_armhf.buildinfo
11a829bbd99d33c6c5f3b6fde4a906eb2e09d2443548f97e973d8cb81e95fabe 1415824 r-bioc-affy_1.56.0-1_armhf.deb
Files:
66d288a0eb032435caf281ab4d045f52 31120 debug optional r-bioc-affy-dbgsym_1.56.0-1_armhf.deb
6f4136e472e4dced4c42096945128c1b 7351 gnu-r optional r-bioc-affy_1.56.0-1_armhf.buildinfo
580445087a49411d40f3bd9c4f9d86fb 1415824 gnu-r optional r-bioc-affy_1.56.0-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
r-bioc-affy-dbgsym_1.56.0-1_armhf.deb
-------------------------------------
new Debian package, version 2.0.
size 31120 bytes: control archive=540 bytes.
387 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: r-bioc-affy-dbgsym
Source: r-bioc-affy
Version: 1.56.0-1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 51
Depends: r-bioc-affy (= 1.56.0-1)
Section: debug
Priority: optional
Description: debug symbols for r-bioc-affy
Build-Ids: ccbaa9acec56a997fe8744cc7216f37479b9c04c
drwxr-xr-x root/root 0 2017-11-08 12:27 ./
drwxr-xr-x root/root 0 2017-11-08 12:27 ./usr/
drwxr-xr-x root/root 0 2017-11-08 12:27 ./usr/lib/
drwxr-xr-x root/root 0 2017-11-08 12:27 ./usr/lib/debug/
drwxr-xr-x root/root 0 2017-11-08 12:27 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2017-11-08 12:27 ./usr/lib/debug/.build-id/cc/
-rw-r--r-- root/root 41108 2017-11-08 12:27 ./usr/lib/debug/.build-id/cc/baa9acec56a997fe8744cc7216f37479b9c04c.debug
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r-bioc-affy_1.56.0-1_armhf.deb
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new Debian package, version 2.0.
size 1415824 bytes: control archive=2100 bytes.
663 bytes, 12 lines control
3932 bytes, 51 lines md5sums
Package: r-bioc-affy
Version: 1.56.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1754
Depends: r-base-core (>= 3.4.2-2), r-api-3.4, r-bioc-biocgenerics (>= 0.1.12), r-bioc-biobase (>= 2.5.5), r-bioc-affyio (>= 1.13.3), r-bioc-biocinstaller, r-bioc-preprocesscore, libc6 (>= 2.4), zlib1g (>= 1:1.1.4)
Section: gnu-r
Priority: optional
Homepage: https://bioconductor.org/packages/affy/
Description: BioConductor methods for Affymetrix Oligonucleotide Arrays
This is part of the BioConductor GNU R suite. The package contains
functions for exploratory oligonucleotide array analysis.
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Build Architecture: armhf
Build-Space: 8384
Build-Time: 94
Distribution: buster-staging
Host Architecture: armhf
Install-Time: 551
Job: r-bioc-affy_1.56.0-1
Machine Architecture: armhf
Package: r-bioc-affy
Package-Time: 699
Source-Version: 1.56.0-1
Space: 8384
Status: successful
Version: 1.56.0-1
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Finished at 2017-11-13T05:28:28Z
Build needed 00:11:39, 8384k disc space