Build log for r-bioc-shortread (1.38.0-2) on armhf

r-bioc-shortread → 1.38.0-2 → armhf → 2018-05-25 10:57:19

sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-02

+==============================================================================+
| r-bioc-shortread 1.38.0-2 (armhf)            Fri, 25 May 2018 10:45:11 +0000 |
+==============================================================================+

Package: r-bioc-shortread
Version: 1.38.0-2
Source Version: 1.38.0-2
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-227b45b9-135a-45fd-ba33-59d7481cbd77' 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 [10.8 MB]
Get:3 http://172.17.0.1/private buster-staging/main armhf Packages [12.5 MB]
Fetched 23.3 MB in 13s (1729 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-shortread' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/r-pkg-team/r-bioc-shortread.git
Please use:
git clone https://salsa.debian.org/r-pkg-team/r-bioc-shortread.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 5192 kB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main r-bioc-shortread 1.38.0-2 (dsc) [2458 B]
Get:2 http://172.17.0.1/private buster-staging/main r-bioc-shortread 1.38.0-2 (tar) [5184 kB]
Get:3 http://172.17.0.1/private buster-staging/main r-bioc-shortread 1.38.0-2 (diff) [5416 B]
Fetched 5192 kB in 1s (3945 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/r-bioc-shortread-e6xAQk/r-bioc-shortread-1.38.0' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-shortread-e6xAQk' 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-ner8Xb/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-ner8Xb/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-ner8Xb/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-ner8Xb/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-ner8Xb/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-ner8Xb/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-ner8Xb/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-ner8Xb/apt_archive ./ Packages [432 B]
Fetched 2108 B in 0s (11.8 kB/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 dbus dbus-user-session e2fsprogs-l10n libexpat1
  libnss-systemd libpam-systemd libsasl2-modules libssl1.1 openssl
  systemd-sysv
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 65 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-ner8Xb/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 15689 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 (>= 11~), dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.23.3), r-bioc-biocparallel, r-bioc-biostrings (>= 2.47.6), r-bioc-rsamtools (>= 1.31.2), r-bioc-genomicalignments (>= 1.15.6), r-bioc-biobase, r-bioc-s4vectors (>= 0.17.25), r-bioc-iranges (>= 2.13.12), r-bioc-genomeinfodb (>= 1.15.2), r-bioc-genomicranges (>= 1.31.8), r-cran-hwriter, r-cran-lattice, r-cran-latticeextra
Filtered Build-Depends: debhelper (>= 11~), dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.23.3), r-bioc-biocparallel, r-bioc-biostrings (>= 2.47.6), r-bioc-rsamtools (>= 1.31.2), r-bioc-genomicalignments (>= 1.15.6), r-bioc-biobase, r-bioc-s4vectors (>= 0.17.25), r-bioc-iranges (>= 2.13.12), r-bioc-genomeinfodb (>= 1.15.2), r-bioc-genomicranges (>= 1.31.8), r-cran-hwriter, r-cran-lattice, r-cran-latticeextra
dpkg-deb: building package 'sbuild-build-depends-r-bioc-shortread-dummy' in '/<<BUILDDIR>>/resolver-ner8Xb/apt_archive/sbuild-build-depends-r-bioc-shortread-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-shortread-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-ner8Xb/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-ner8Xb/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-ner8Xb/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-ner8Xb/apt_archive ./ Sources [647 B]
Get:5 copy:/<<BUILDDIR>>/resolver-ner8Xb/apt_archive ./ Packages [727 B]
Fetched 2707 B in 0s (15.1 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...

Install r-bioc-shortread 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:
  dbus dbus-user-session e2fsprogs-l10n libnss-systemd libpam-systemd
  libsasl2-modules systemd-sysv
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
  autoconf automake autopoint autotools-dev bsdmainutils cdbs cpp-7
  dctrl-tools debhelper dh-autoreconf dh-python dh-r dh-strip-nondeterminism
  dwz file fontconfig fontconfig-config fonts-dejavu-core g++-7 gcc-7
  gcc-7-base gettext gettext-base gfortran gfortran-7 gir1.2-glib-2.0
  gir1.2-harfbuzz-0.0 groff-base icu-devtools intltool-debian
  libarchive-zip-perl libasan4 libblas-dev libblas3 libbsd0 libbz2-dev
  libcairo2 libcilkrts5 libcroco3 libcurl3 libdatrie1 libelf1
  libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0
  libgcc-7-dev libgfortran-7-dev libgfortran4 libgirepository-1.0-1
  libglib2.0-0 libglib2.0-bin libglib2.0-data libglib2.0-dev
  libglib2.0-dev-bin libgraphite2-3 libgraphite2-dev libgssapi-krb5-2
  libharfbuzz-dev libharfbuzz-gobject0 libharfbuzz-icu0 libharfbuzz0b libice6
  libicu-dev libicu-le-hb-dev libicu-le-hb0 libicu57 libicu60 libisl19
  libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3
  libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblzma-dev
  libmagic-mgc libmagic1 libmpdec2 libncurses-dev libncurses5-dev libncurses6
  libncursesw6 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
  libpython3-stdlib libpython3.6-minimal libpython3.6-stdlib libreadline-dev
  libreadline7 librtmp1 libsigsegv2 libsm6 libssh2-1 libssl1.0.2
  libstdc++-7-dev libtcl8.6 libthai-data libthai0 libtiff5 libtimedate-perl
  libtinfo6 libtk8.6 libtool libubsan0 libx11-6 libx11-data libxau6
  libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2
  libxmuu1 libxrender1 libxss1 libxt6 m4 man-db mime-support pkg-config
  po-debconf python3 python3-distutils python3-lib2to3 python3-minimal
  python3.6 python3.6-minimal r-base-core r-base-dev r-bioc-biobase
  r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings
  r-bioc-delayedarray r-bioc-genomeinfodb r-bioc-genomeinfodbdata
  r-bioc-genomicalignments r-bioc-genomicranges r-bioc-iranges
  r-bioc-rsamtools r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-xvector
  r-cran-bitops r-cran-formatr r-cran-futile.logger r-cran-futile.options
  r-cran-hwriter r-cran-lambda.r r-cran-lattice r-cran-latticeextra
  r-cran-matrix r-cran-matrixstats r-cran-rcolorbrewer r-cran-rcurl
  r-cran-snow ucf unzip x11-common xauth xdg-utils zip zlib1g zlib1g-dev
Suggested packages:
  autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
  vacation devscripts gcc-7-locales debtags dh-make gcc-7-doc libstdc++6-7-dbg
  libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan4-dbg
  liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libmpx2-dbg
  libquadmath0-dbg gettext-doc libasprintf-dev libgettextpo-dev gfortran-doc
  gfortran-7-doc libgfortran4-dbg libcoarrays-dev groff liblapack-doc
  libglib2.0-doc libgraphite2-utils krb5-doc krb5-user icu-doc liblzma-doc
  ncurses-doc readline-doc libstdc++-7-doc tcl8.6 tk8.6 libtool-doc gcj-jdk
  m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk
  python3-venv python3.6-venv python3.6-doc binfmt-support 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 r-bioc-annotationdbi r-bioc-affy r-bioc-deseq2 r-bioc-annotate
  r-cran-foreach r-cran-batchjobs r-cran-bbmisc r-cran-doparallel r-cran-rmpi
  r-bioc-variantannotation r-bioc-shortread r-cran-codetools r-cran-knitr
  r-bioc-bsgenome r-bioc-genomicfeatures r-bioc-genefilter r-bioc-rtracklayer
  r-bioc-edger r-bioc-gviz r-bioc-annotationhub r-cran-digest r-bioc-graph
  r-cran-data.table r-cran-rmarkdown r-cran-jsonlite r-cran-shiny
  r-cran-testit r-cran-testthat r-cran-base64enc r-cran-ggplot2 r-cran-xml
  r-cran-rsprng r-cran-rlecuyer
Recommended packages:
  curl | wget | lynx bzip2-doc libarchive-cpio-perl shared-mime-info
  xdg-user-dirs krb5-locales libgpm2 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-python dh-r dh-strip-nondeterminism dwz file
  fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
  gfortran-7 gir1.2-glib-2.0 gir1.2-harfbuzz-0.0 groff-base icu-devtools
  intltool-debian libarchive-zip-perl libblas-dev libblas3 libbsd0 libbz2-dev
  libcairo2 libcroco3 libcurl3 libdatrie1 libelf1
  libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0
  libgfortran-7-dev libgfortran4 libgirepository-1.0-1 libglib2.0-0
  libglib2.0-bin libglib2.0-data libglib2.0-dev libglib2.0-dev-bin
  libgraphite2-3 libgraphite2-dev libgssapi-krb5-2 libharfbuzz-dev
  libharfbuzz-gobject0 libharfbuzz-icu0 libharfbuzz0b libice6 libicu-dev
  libicu-le-hb-dev libicu-le-hb0 libicu57 libicu60 libisl19 libjbig0
  libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1
  libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblzma-dev libmagic-mgc
  libmagic1 libmpdec2 libncurses-dev libncurses5-dev libncurses6 libncursesw6
  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 libpython3-stdlib
  libpython3.6-minimal libpython3.6-stdlib libreadline-dev librtmp1
  libsigsegv2 libsm6 libssh2-1 libssl1.0.2 libtcl8.6 libthai-data libthai0
  libtiff5 libtimedate-perl libtinfo6 libtk8.6 libtool libx11-6 libx11-data
  libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2
  libxml2 libxmuu1 libxrender1 libxss1 libxt6 m4 man-db mime-support
  pkg-config po-debconf python3 python3-distutils python3-lib2to3
  python3-minimal python3.6 python3.6-minimal r-base-core r-base-dev
  r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings
  r-bioc-delayedarray r-bioc-genomeinfodb r-bioc-genomeinfodbdata
  r-bioc-genomicalignments r-bioc-genomicranges r-bioc-iranges
  r-bioc-rsamtools r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-xvector
  r-cran-bitops r-cran-formatr r-cran-futile.logger r-cran-futile.options
  r-cran-hwriter r-cran-lambda.r r-cran-lattice r-cran-latticeextra
  r-cran-matrix r-cran-matrixstats r-cran-rcolorbrewer r-cran-rcurl
  r-cran-snow sbuild-build-depends-r-bioc-shortread-dummy ucf unzip x11-common
  xauth xdg-utils zip zlib1g-dev
The following packages will be upgraded:
  cpp-7 g++-7 gcc-7 gcc-7-base libasan4 libcilkrts5 libgcc-7-dev libreadline7
  libstdc++-7-dev libubsan0 zlib1g
11 upgraded, 173 newly installed, 0 to remove and 54 not upgraded.
Need to get 153 MB/166 MB of archives.
After this operation, 361 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-ner8Xb/apt_archive ./ sbuild-build-depends-r-bioc-shortread-dummy 0.invalid.0 [1008 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.3-10 [1005 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.5.0-1 [24.6 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf zlib1g armhf 1:1.2.11.dfsg-1 [87.3 kB]
Get:6 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.8.3-2 [1146 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf libx11-data all 2:1.6.5-1 [292 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf libx11-6 armhf 2:1.6.5-1 [683 kB]
Get:9 http://172.17.0.1/private buster-staging/main armhf libpython3.6-minimal armhf 3.6.5~rc1-1 [565 kB]
Get:10 http://172.17.0.1/private buster-staging/main armhf python3.6-minimal armhf 3.6.5~rc1-1 [1234 kB]
Get:11 http://172.17.0.1/private buster-staging/main armhf libmpdec2 armhf 2.4.2-2 [67.2 kB]
Get:12 http://172.17.0.1/private buster-staging/main armhf libtinfo6 armhf 6.1+20180210-3 [307 kB]
Get:13 http://172.17.0.1/private buster-staging/main armhf libreadline7 armhf 7.0-5 [130 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf libpython3.6-stdlib armhf 3.6.5~rc1-1 [1585 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf python3-lib2to3 all 3.6.5~rc1-1 [79.0 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf python3-distutils all 3.6.5~rc1-1 [147 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf python3.6 armhf 3.6.5~rc1-1 [229 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf libpython3-stdlib armhf 3.6.4-1 [19.3 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf dh-python all 3.20180326 [93.2 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf python3 armhf 3.6.4-1 [22.3 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf libasan4 armhf 7.3.0-19 [301 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf libisl19 armhf 0.19-1 [427 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf g++-7 armhf 7.3.0-19 [5593 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf gcc-7 armhf 7.3.0-19 [5488 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf cpp-7 armhf 7.3.0-19 [5139 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf libubsan0 armhf 7.3.0-19 [106 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf libcilkrts5 armhf 7.3.0-19 [35.2 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf libstdc++-7-dev armhf 7.3.0-19 [1506 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf libgcc-7-dev armhf 7.3.0-19 [671 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf gcc-7-base armhf 7.3.0-19 [187 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf libssl1.0.2 armhf 1.0.2o-1 [888 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.33-2 [234 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.33-2 [106 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.33-2 [64.7 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-6 [117 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-1 [185 kB]
Get:38 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:39 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:40 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.15.1-3.1 [736 kB]
Get:41 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-6 [434 kB]
Get:42 http://172.17.0.1/private buster-staging/main armhf cdbs all 0.4.156 [83.1 kB]
Get:43 http://172.17.0.1/private buster-staging/main armhf dctrl-tools armhf 2.24-2 [94.4 kB]
Get:44 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-2.1 [547 kB]
Get:45 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:46 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.60-1 [95.6 kB]
Get:47 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 0.041-1 [19.9 kB]
Get:48 http://172.17.0.1/private buster-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:49 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 0.041-1 [12.0 kB]
Get:50 http://172.17.0.1/private buster-staging/main armhf libelf1 armhf 0.170-0.4 [160 kB]
Get:51 http://172.17.0.1/private buster-staging/main armhf dwz armhf 0.12-2 [67.4 kB]
Get:52 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.56.1-2 [2754 kB]
Get:53 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-6 [1218 kB]
Get:54 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:55 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:56 http://172.17.0.1/private buster-staging/main armhf debhelper all 11.3.2 [994 kB]
Get:57 http://172.17.0.1/private buster-staging/main armhf zip armhf 3.0-11 [212 kB]
Get:58 http://172.17.0.1/private buster-staging/main armhf unzip armhf 6.0-21 [149 kB]
Get:59 http://172.17.0.1/private buster-staging/main armhf libpaper1 armhf 1.1.24+nmu5 [20.8 kB]
Get:60 http://172.17.0.1/private buster-staging/main armhf libpaper-utils armhf 1.1.24+nmu5 [17.2 kB]
Get:61 http://172.17.0.1/private buster-staging/main armhf xdg-utils all 1.1.3-1 [73.3 kB]
Get:62 http://172.17.0.1/private buster-staging/main armhf libgfortran4 armhf 7.3.0-19 [191 kB]
Get:63 http://172.17.0.1/private buster-staging/main armhf libblas3 armhf 3.8.0-1 [103 kB]
Get:64 http://172.17.0.1/private buster-staging/main armhf fontconfig-config all 2.13.0-5 [280 kB]
Get:65 http://172.17.0.1/private buster-staging/main armhf libfontconfig1 armhf 2.13.0-5 [325 kB]
Get:66 http://172.17.0.1/private buster-staging/main armhf libcairo2 armhf 1.15.10-3 [575 kB]
Get:67 http://172.17.0.1/private buster-staging/main armhf libnghttp2-14 armhf 1.32.0-1 [71.7 kB]
Get:68 http://172.17.0.1/private buster-staging/main armhf libpsl5 armhf 0.20.1-1 [51.4 kB]
Get:69 http://172.17.0.1/private buster-staging/main armhf libcurl3 armhf 7.60.0-1 [282 kB]
Get:70 http://172.17.0.1/private buster-staging/main armhf liblapack3 armhf 3.8.0-1 [1518 kB]
Get:71 http://172.17.0.1/private buster-staging/main armhf fontconfig armhf 2.13.0-5 [403 kB]
Get:72 http://172.17.0.1/private buster-staging/main armhf libfribidi0 armhf 0.19.7-2 [44.1 kB]
Get:73 http://172.17.0.1/private buster-staging/main armhf libdatrie1 armhf 0.2.11-1 [34.6 kB]
Get:74 http://172.17.0.1/private buster-staging/main armhf libpango-1.0-0 armhf 1.42.0-1 [158 kB]
Get:75 http://172.17.0.1/private buster-staging/main armhf libharfbuzz0b armhf 1.7.6-1 [799 kB]
Get:76 http://172.17.0.1/private buster-staging/main armhf libpangoft2-1.0-0 armhf 1.42.0-1 [53.2 kB]
Get:77 http://172.17.0.1/private buster-staging/main armhf libpangocairo-1.0-0 armhf 1.42.0-1 [43.3 kB]
Get:78 http://172.17.0.1/private buster-staging/main armhf libtcl8.6 armhf 8.6.8+dfsg-4 [863 kB]
Get:79 http://172.17.0.1/private buster-staging/main armhf libtiff5 armhf 4.0.9-5 [224 kB]
Get:80 http://172.17.0.1/private buster-staging/main armhf libxft2 armhf 2.3.2-2 [49.3 kB]
Get:81 http://172.17.0.1/private buster-staging/main armhf libtk8.6 armhf 8.6.8-4 [657 kB]
Get:82 http://172.17.0.1/private buster-staging/main armhf r-base-core armhf 3.4.4-1 [23.0 MB]
Get:83 http://172.17.0.1/private buster-staging/main armhf libgfortran-7-dev armhf 7.3.0-19 [232 kB]
Get:84 http://172.17.0.1/private buster-staging/main armhf gfortran-7 armhf 7.3.0-19 [5459 kB]
Get:85 http://172.17.0.1/private buster-staging/main armhf gfortran armhf 4:7.2.0-1d1 [1352 B]
Get:86 http://172.17.0.1/private buster-staging/main armhf libblas-dev armhf 3.8.0-1 [111 kB]
Get:87 http://172.17.0.1/private buster-staging/main armhf liblapack-dev armhf 3.8.0-1 [1577 kB]
Get:88 http://172.17.0.1/private buster-staging/main armhf libncurses6 armhf 6.1+20180210-3 [78.3 kB]
Get:89 http://172.17.0.1/private buster-staging/main armhf libncursesw6 armhf 6.1+20180210-3 [103 kB]
Get:90 http://172.17.0.1/private buster-staging/main armhf libncurses-dev armhf 6.1+20180210-3 [278 kB]
Get:91 http://172.17.0.1/private buster-staging/main armhf libncurses5-dev armhf 6.1+20180210-3 [924 B]
Get:92 http://172.17.0.1/private buster-staging/main armhf libreadline-dev armhf 7.0-5 [110 kB]
Get:93 http://172.17.0.1/private buster-staging/main armhf libpcre16-3 armhf 2:8.39-9 [234 kB]
Get:94 http://172.17.0.1/private buster-staging/main armhf libpcre32-3 armhf 2:8.39-9 [226 kB]
Get:95 http://172.17.0.1/private buster-staging/main armhf libpcrecpp0v5 armhf 2:8.39-9 [150 kB]
Get:96 http://172.17.0.1/private buster-staging/main armhf libpcre3-dev armhf 2:8.39-9 [561 kB]
Get:97 http://172.17.0.1/private buster-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
Get:98 http://172.17.0.1/private buster-staging/main armhf libbz2-dev armhf 1.0.6-8.1 [26.9 kB]
Get:99 http://172.17.0.1/private buster-staging/main armhf libicu-le-hb0 armhf 1.0.3+git161113-5 [12.8 kB]
Get:100 http://172.17.0.1/private buster-staging/main armhf libicu60 armhf 60.2-6 [7789 kB]
Get:101 http://172.17.0.1/private buster-staging/main armhf icu-devtools armhf 60.2-6 [166 kB]
Get:102 http://172.17.0.1/private buster-staging/main armhf libharfbuzz-icu0 armhf 1.7.6-1 [584 kB]
Get:103 http://172.17.0.1/private buster-staging/main armhf libharfbuzz-gobject0 armhf 1.7.6-1 [590 kB]
Get:104 http://172.17.0.1/private buster-staging/main armhf libgirepository-1.0-1 armhf 1.56.1-1 [77.6 kB]
Get:105 http://172.17.0.1/private buster-staging/main armhf gir1.2-glib-2.0 armhf 1.56.1-1 [142 kB]
Get:106 http://172.17.0.1/private buster-staging/main armhf gir1.2-harfbuzz-0.0 armhf 1.7.6-1 [597 kB]
Get:107 http://172.17.0.1/private buster-staging/main armhf libglib2.0-data all 2.56.1-2 [2671 kB]
Get:108 http://172.17.0.1/private buster-staging/main armhf libglib2.0-bin armhf 2.56.1-2 [1694 kB]
Get:109 http://172.17.0.1/private buster-staging/main armhf libglib2.0-dev-bin armhf 2.56.1-2 [1733 kB]
Get:110 http://172.17.0.1/private buster-staging/main armhf libglib2.0-dev armhf 2.56.1-2 [2807 kB]
Get:111 http://172.17.0.1/private buster-staging/main armhf libgraphite2-dev armhf 1.3.11-2 [22.2 kB]
Get:112 http://172.17.0.1/private buster-staging/main armhf libharfbuzz-dev armhf 1.7.6-1 [879 kB]
Get:113 http://172.17.0.1/private buster-staging/main armhf libicu-le-hb-dev armhf 1.0.3+git161113-5 [28.3 kB]
Get:114 http://172.17.0.1/private buster-staging/main armhf libicu-dev armhf 60.2-6 [8643 kB]
Get:115 http://172.17.0.1/private buster-staging/main armhf libxmuu1 armhf 2:1.1.2-2 [23.0 kB]
Get:116 http://172.17.0.1/private buster-staging/main armhf xauth armhf 1:1.0.10-1 [36.4 kB]
Get:117 http://172.17.0.1/private buster-staging/main armhf r-base-dev all 3.4.4-1 [4488 B]
Get:118 http://172.17.0.1/private buster-staging/main armhf dh-r all 20180514 [20.2 kB]
Get:119 http://172.17.0.1/private buster-staging/main armhf r-bioc-biocgenerics all 0.26.0-2 [582 kB]
Get:120 http://172.17.0.1/private buster-staging/main armhf r-bioc-biobase armhf 2.40.0-2 [2025 kB]
Get:121 http://172.17.0.1/private buster-staging/main armhf r-cran-formatr armhf 1.5-2 [126 kB]
Get:122 http://172.17.0.1/private buster-staging/main armhf r-cran-lambda.r all 1.2.3-1 [87.7 kB]
Get:123 http://172.17.0.1/private buster-staging/main armhf r-cran-futile.options all 1.0.1-1 [16.0 kB]
Get:124 http://172.17.0.1/private buster-staging/main armhf r-cran-futile.logger all 1.4.3-2 [93.8 kB]
Get:125 http://172.17.0.1/private buster-staging/main armhf r-cran-snow all 1:0.4.2-1.1 [65.4 kB]
Get:126 http://172.17.0.1/private buster-staging/main armhf r-bioc-biocparallel armhf 1.14.1-1 [955 kB]
Get:127 http://172.17.0.1/private buster-staging/main armhf r-bioc-s4vectors armhf 0.18.2-1 [1353 kB]
Get:128 http://172.17.0.1/private buster-staging/main armhf r-bioc-iranges armhf 2.14.10-1 [1466 kB]
Get:129 http://172.17.0.1/private buster-staging/main armhf r-bioc-xvector armhf 0.20.0-2 [378 kB]
Get:130 http://172.17.0.1/private buster-staging/main armhf r-bioc-biostrings armhf 2.48.0-2 [13.6 MB]
Get:131 http://172.17.0.1/private buster-staging/main armhf r-cran-matrixstats armhf 0.53.1-1 [560 kB]
Get:132 http://172.17.0.1/private buster-staging/main armhf r-bioc-delayedarray all 0.6.0-2 [900 kB]
Get:133 http://172.17.0.1/private buster-staging/main armhf r-cran-bitops armhf 1.0-6-3 [22.5 kB]
Get:134 http://172.17.0.1/private buster-staging/main armhf r-cran-rcurl armhf 1.95-4.10-1 [618 kB]
Get:135 http://172.17.0.1/private buster-staging/main armhf r-bioc-genomeinfodbdata all 1.1.0-2 [8213 kB]
Get:136 http://172.17.0.1/private buster-staging/main armhf r-bioc-genomeinfodb all 1.16.0-2 [3529 kB]
Get:137 http://172.17.0.1/private buster-staging/main armhf r-bioc-genomicranges armhf 1.32.3-1 [1566 kB]
Get:138 http://172.17.0.1/private buster-staging/main armhf r-cran-lattice armhf 0.20-35-1+b1 [723 kB]
Get:139 http://172.17.0.1/private buster-staging/main armhf r-cran-matrix armhf 1.2-14-1 [2320 kB]
Get:140 http://172.17.0.1/private buster-staging/main armhf r-bioc-summarizedexperiment all 1.10.1-1 [1573 kB]
Get:141 http://172.17.0.1/private buster-staging/main armhf r-bioc-rsamtools armhf 1.32.0-2 [3281 kB]
Get:142 http://172.17.0.1/private buster-staging/main armhf r-bioc-genomicalignments armhf 1.16.0-2 [1690 kB]
Get:143 http://172.17.0.1/private buster-staging/main armhf r-cran-hwriter all 1.3.2-2 [137 kB]
Get:144 http://172.17.0.1/private buster-staging/main armhf r-cran-rcolorbrewer all 1.1-2-1.1 [26.3 kB]
Get:145 http://172.17.0.1/private buster-staging/main armhf r-cran-latticeextra armhf 0.6-28-2+b1 [2059 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Setting up cdbs (0.4.156) ...
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Setting up mime-support (3.60) ...
Setting up libtimedate-perl (2.3000-2) ...
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Setting up libelf1:armhf (0.170-0.4) ...
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Setting up libfribidi0:armhf (0.19.7-2) ...
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Creating config file /etc/papersize with new version
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Setting up fontconfig (2.13.0-5) ...
Regenerating fonts cache... done.
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Setting up r-base-core (3.4.4-1) ...

Creating config file /etc/R/Renviron with new version
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Setting up r-bioc-biobase (2.40.0-2) ...
Setting up r-cran-rcolorbrewer (1.1-2-1.1) ...
Setting up r-cran-bitops (1.0-6-3) ...
Setting up r-cran-formatr (1.5-2) ...
Setting up r-cran-futile.options (1.0.1-1) ...
Setting up r-cran-rcurl (1.95-4.10-1) ...
Setting up r-cran-hwriter (1.3.2-2) ...
Setting up r-cran-lambda.r (1.2.3-1) ...
Setting up r-cran-matrixstats (0.53.1-1) ...
Setting up r-cran-snow (1:0.4.2-1.1) ...
Setting up r-bioc-s4vectors (0.18.2-1) ...
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Setting up r-cran-latticeextra (0.6-28-2+b1) ...
Setting up r-bioc-genomeinfodbdata (1.1.0-2) ...
Setting up r-cran-futile.logger (1.4.3-2) ...
Setting up r-bioc-iranges (2.14.10-1) ...
Setting up r-bioc-biocparallel (1.14.1-1) ...
Setting up r-cran-matrix (1.2-14-1) ...
Setting up r-bioc-delayedarray (0.6.0-2) ...
Setting up r-bioc-genomeinfodb (1.16.0-2) ...
Setting up r-bioc-xvector (0.20.0-2) ...
Setting up r-bioc-biostrings (2.48.0-2) ...
Setting up r-bioc-genomicranges (1.32.3-1) ...
Setting up r-bioc-summarizedexperiment (1.10.1-1) ...
Setting up r-bioc-rsamtools (1.32.0-2) ...
Setting up r-bioc-genomicalignments (1.16.0-2) ...
Setting up dh-autoreconf (19) ...
Setting up python3 (3.6.4-1) ...
Setting up libicu-le-hb0:armhf (1.0.3+git161113-5) ...
Setting up dh-strip-nondeterminism (0.041-1) ...
Setting up python3-lib2to3 (3.6.5~rc1-1) ...
Setting up dh-python (3.20180326) ...
Setting up python3-distutils (3.6.5~rc1-1) ...
Setting up debhelper (11.3.2) ...
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Setting up python3.6 (3.6.5~rc1-1) ...
Setting up libglib2.0-dev-bin (2.56.1-2) ...
Setting up libglib2.0-dev:armhf (2.56.1-2) ...
Setting up icu-devtools (60.2-6) ...
Setting up libicu-dev (60.2-6) ...
Setting up r-base-dev (3.4.4-1) ...
Setting up libharfbuzz-dev:armhf (1.7.6-1) ...
Setting up dh-r (20180514) ...
Setting up libicu-le-hb-dev:armhf (1.0.3+git161113-5) ...
Setting up sbuild-build-depends-r-bioc-shortread-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.27-3+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges

+------------------------------------------------------------------------------+
| Build environment                                                            |
+------------------------------------------------------------------------------+

Kernel: Linux 4.4.0-124-generic armhf (armv8l)
Toolchain package versions: binutils_2.30-15+rpi1 dpkg-dev_1.19.0.5 g++-7_7.3.0-19 gcc-7_7.3.0-19 libc6-dev_2.27-3+rpi1 libstdc++-7-dev_7.3.0-19 libstdc++6_8-20180414-1+rpi1 linux-libc-dev_4.15.17-1+rpi1
Package versions: adduser_3.117 apt_1.6.1 autoconf_2.69-11 automake_1:1.15.1-3.1 autopoint_0.19.8.1-6 autotools-dev_20180224.1 base-files_10.1+rpi1 base-passwd_3.5.45 bash_4.4.18-2+b1 binutils_2.30-15+rpi1 binutils-arm-linux-gnueabihf_2.30-15+rpi1 binutils-common_2.30-15+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.31.1-0.5 build-essential_12.4+b1 bzip2_1.0.6-8.1 ca-certificates_20170717 cdbs_0.4.156 coreutils_8.28-1 cpio_2.12+dfsg-6 cpp_4:7.2.0-1d1 cpp-7_7.3.0-19 dash_0.5.8-2.10 dbus_1.12.6-2 dbus-user-session_1.12.6-2 dctrl-tools_2.24-2 debconf_1.5.66 debhelper_11.3.2 debianutils_4.8.4 dh-autoreconf_19 dh-python_3.20180326 dh-r_20180514 dh-strip-nondeterminism_0.041-1 diffutils_1:3.6-1 dirmngr_2.2.5-1 dmsetup_2:1.02.145-4.1 dpkg_1.19.0.5 dpkg-dev_1.19.0.5 dwz_0.12-2 e2fslibs_1.44.1-2 e2fsprogs_1.44.1-2 e2fsprogs-l10n_1.44.1-2 fakeroot_1.22-2 fdisk_2.31.1-0.5 file_1:5.33-2 findutils_4.6.0+git+20171230-2 fontconfig_2.13.0-5 fontconfig-config_2.13.0-5 fonts-dejavu-core_2.37-1 g++_4:7.2.0-1d1 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libaudit-common_1:2.8.2-1 libaudit1_1:2.8.2-1 libbinutils_2.30-15+rpi1 libblas-dev_3.8.0-1 libblas3_3.8.0-1 libblkid1_2.31.1-0.5 libbsd0_0.8.7-1 libbz2-1.0_1.0.6-8.1 libbz2-dev_1.0.6-8.1 libc-bin_2.27-3+rpi1 libc-dev-bin_2.27-3+rpi1 libc6_2.27-3+rpi1 libc6-dev_2.27-3+rpi1 libcairo2_1.15.10-3 libcap-ng0_0.7.7-3.1+b1 libcap2_1:2.25-1.2 libcc1-0_8-20180414-1+rpi1 libcilkrts5_7.3.0-19 libcom-err2_1.44.1-2 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.2-1 libcryptsetup4_2:1.7.5-1 libcurl3_7.60.0-1 libdatrie1_0.2.11-1 libdb5.3_5.3.28-13.1 libdbus-1-3_1.12.6-2 libdebconfclient0_0.243 libdevmapper1.02.1_2:1.02.145-4.1 libdpkg-perl_1.19.0.5 libdrm-common_2.4.91-2+rpi1 libdrm2_2.4.91-2+rpi1 libelf1_0.170-0.4 libexpat1_2.2.5-3 libext2fs2_1.44.1-2 libfakeroot_1.22-2 libfdisk1_2.31.1-0.5 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.041-1 libfontconfig1_2.13.0-5 libfreetype6_2.8.1-2 libfribidi0_0.19.7-2 libgcc-7-dev_7.3.0-19 libgcc1_1:8-20180414-1+rpi1 libgcrypt20_1.8.2-2 libgdbm-compat4_1.14.1-6 libgdbm3_1.8.3-14 libgdbm5_1.14.1-6 libgfortran-7-dev_7.3.0-19 libgfortran4_7.3.0-19 libgirepository-1.0-1_1.56.1-1 libglib2.0-0_2.56.1-2 libglib2.0-bin_2.56.1-2 libglib2.0-data_2.56.1-2 libglib2.0-dev_2.56.1-2 libglib2.0-dev-bin_2.56.1-2 libgmp10_2:6.1.2+dfsg-3 libgnutls30_3.5.18-1 libgomp1_8-20180414-1+rpi1 libgpg-error0_1.29-4 libgraphite2-3_1.3.11-2 libgraphite2-dev_1.3.11-2 libgssapi-krb5-2_1.16-2 libharfbuzz-dev_1.7.6-1 libharfbuzz-gobject0_1.7.6-1 libharfbuzz-icu0_1.7.6-1 libharfbuzz0b_1.7.6-1 libhogweed4_3.4-1 libice6_2:1.0.9-2 libicu-dev_60.2-6 libicu-le-hb-dev_1.0.3+git161113-5 libicu-le-hb0_1.0.3+git161113-5 libicu57_57.1-9 libicu60_60.2-6 libidn11_1.33-2.2 libidn2-0_2.0.4-1.1 libip4tc0_1.6.2-1 libisl15_0.18-4 libisl19_0.19-1 libjbig0_2.1-3.1+b2 libjpeg-dev_1:1.5.2-2 libjpeg62-turbo_1:1.5.2-2+b1 libjpeg62-turbo-dev_1:1.5.2-2+b1 libjson-c3_0.12.1-1.3 libk5crypto3_1.16-2 libkeyutils1_1.5.9-9.2 libklibc_2.0.4-11+rpi1 libkmod2_25-1 libkrb5-3_1.16-2 libkrb5support0_1.16-2 libksba8_1.3.5-2 liblapack-dev_3.8.0-1 liblapack3_3.8.0-1 libldap-2.4-2_2.4.45+dfsg-1 libldap-common_2.4.45+dfsg-1 liblz4-1_1.8.1.2-1+rpi1 liblzma-dev_5.2.2-1.3 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.33-2 libmagic1_1:5.33-2 libmount1_2.31.1-0.5 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.1-1 libncurses-dev_6.1+20180210-3 libncurses5_6.1-1 libncurses5-dev_6.1+20180210-3 libncurses6_6.1+20180210-3 libncursesw5_6.1-1 libncursesw6_6.1+20180210-3 libnettle6_3.4-1 libnghttp2-14_1.32.0-1 libnpth0_1.5-3 libnss-systemd_238-4 libp11-kit0_0.23.10-2 libpam-modules_1.1.8-3.7 libpam-modules-bin_1.1.8-3.7 libpam-runtime_1.1.8-3.7 libpam-systemd_238-4 libpam0g_1.1.8-3.7 libpango-1.0-0_1.42.0-1 libpangocairo-1.0-0_1.42.0-1 libpangoft2-1.0-0_1.42.0-1 libpaper-utils_1.1.24+nmu5 libpaper1_1.1.24+nmu5 libpcre16-3_2:8.39-9 libpcre3_2:8.39-9 libpcre3-dev_2:8.39-9 libpcre32-3_2:8.39-9 libpcrecpp0v5_2:8.39-9 libperl5.24_5.24.1-7 libperl5.26_5.26.2-2 libpipeline1_1.5.0-1 libpixman-1-0_0.34.0-2 libplymouth4_0.9.3-2 libpng-dev_1.6.34-1 libpng16-16_1.6.34-1 libprocps6_2:3.3.14-1 libpsl5_0.20.1-1 libpython3-stdlib_3.6.4-1 libpython3.6-minimal_3.6.5~rc1-1 libpython3.6-stdlib_3.6.5~rc1-1 libreadline-dev_7.0-5 libreadline7_7.0-5 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.27~101-g0780600+dfsg-3.1 libsasl2-modules_2.1.27~101-g0780600+dfsg-3.1 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3.1 libseccomp2_2.3.3-1 libselinux1_2.7-2 libsemanage-common_2.7-2 libsemanage1_2.7-2 libsepol1_2.7-1 libsigsegv2_2.12-2 libsm6_2:1.2.2-1+b3 libsmartcols1_2.31.1-0.5 libsqlite3-0_3.23.1-1 libss2_1.44.1-2 libssh2-1_1.8.0-1 libssl1.0.2_1.0.2o-1 libssl1.1_1.1.0h-2 libstdc++-7-dev_7.3.0-19 libstdc++6_8-20180414-1+rpi1 libsystemd0_238-4 libtasn1-6_4.13-2 libtcl8.6_8.6.8+dfsg-4 libthai-data_0.1.27-2 libthai0_0.1.27-2 libtiff5_4.0.9-5 libtimedate-perl_2.3000-2 libtinfo5_6.1-1 libtinfo6_6.1+20180210-3 libtk8.6_8.6.8-4 libtool_2.4.6-2.1 libubsan0_7.3.0-19 libudev1_238-4 libunistring2_0.9.8-1 libustr-1.0-1_1.0.4-6 libuuid1_2.31.1-0.5 libx11-6_2:1.6.5-1 libx11-data_2:1.6.5-1 libxau6_1:1.0.8-1+b2 libxcb-render0_1.13-1 libxcb-shm0_1.13-1 libxcb1_1.13-1 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1+b2 libxft2_2.3.2-2 libxml2_2.9.4+dfsg1-6.1 libxmuu1_2:1.1.2-2 libxrender1_1:0.9.10-1 libxss1_1:1.2.2-1 libxt6_1:1.1.5-1 libzstd1_1.3.3+dfsg-2+rpi1 linux-base_4.5 linux-libc-dev_4.15.17-1+rpi1 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_2.8.3-2 mawk_1.3.3-17 mime-support_3.60 mount_2.31.1-0.5 multiarch-support_2.27-3+rpi1 nano_2.9.5-1 ncurses-base_6.1-1 ncurses-bin_6.1-1 netbase_5.4 openssl_1.1.0h-2 passwd_1:4.5-1 patch_2.7.6-2 perl_5.26.2-2 perl-base_5.26.2-2 perl-modules-5.24_5.24.1-7 perl-modules-5.26_5.26.2-3 pinentry-curses_1.1.0-1 pkg-config_0.29-4 plymouth_0.9.3-2 po-debconf_1.0.20 procps_2:3.3.14-1 python3_3.6.4-1 python3-distutils_3.6.5~rc1-1 python3-lib2to3_3.6.5~rc1-1 python3-minimal_3.6.4-1 python3.6_3.6.5~rc1-1 python3.6-minimal_3.6.5~rc1-1 r-base-core_3.4.4-1 r-base-dev_3.4.4-1 r-bioc-biobase_2.40.0-2 r-bioc-biocgenerics_0.26.0-2 r-bioc-biocparallel_1.14.1-1 r-bioc-biostrings_2.48.0-2 r-bioc-delayedarray_0.6.0-2 r-bioc-genomeinfodb_1.16.0-2 r-bioc-genomeinfodbdata_1.1.0-2 r-bioc-genomicalignments_1.16.0-2 r-bioc-genomicranges_1.32.3-1 r-bioc-iranges_2.14.10-1 r-bioc-rsamtools_1.32.0-2 r-bioc-s4vectors_0.18.2-1 r-bioc-summarizedexperiment_1.10.1-1 r-bioc-xvector_0.20.0-2 r-cran-bitops_1.0-6-3 r-cran-formatr_1.5-2 r-cran-futile.logger_1.4.3-2 r-cran-futile.options_1.0.1-1 r-cran-hwriter_1.3.2-2 r-cran-lambda.r_1.2.3-1 r-cran-lattice_0.20-35-1+b1 r-cran-latticeextra_0.6-28-2+b1 r-cran-matrix_1.2-14-1 r-cran-matrixstats_0.53.1-1 r-cran-rcolorbrewer_1.1-2-1.1 r-cran-rcurl_1.95-4.10-1 r-cran-snow_1:0.4.2-1.1 raspbian-archive-keyring_20120528.2 readline-common_7.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-shortread-dummy_0.invalid.0 sed_4.4-2 sensible-utils_0.0.12 systemd_238-4 systemd-sysv_238-4 sysvinit-utils_2.88dsf-59.10 tar_1.29b-2 tzdata_2018d-1 ucf_3.0038 udev_238-4 unzip_6.0-21 util-linux_2.31.1-0.5 x11-common_1:7.7+19 xauth_1:1.0.10-1 xdg-utils_1.1.3-1 xz-utils_5.2.2-1.3 zip_3.0-11 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1

+------------------------------------------------------------------------------+
| Build                                                                        |
+------------------------------------------------------------------------------+


Unpack source
-------------

gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Sun May  6 06:13:46 2018 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-shortread_1.38.0-2.dsc
dpkg-source: info: extracting r-bioc-shortread in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking r-bioc-shortread_1.38.0.orig.tar.gz
dpkg-source: info: unpacking r-bioc-shortread_1.38.0-2.debian.tar.xz
dpkg-source: info: applying use_debian_packaged_zlib.patch

Check disk space
----------------

Sufficient free space for build

User Environment
----------------

APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=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-227b45b9-135a-45fd-ba33-59d7481cbd77
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd

dpkg-buildpackage
-----------------

dpkg-buildpackage: info: source package r-bioc-shortread
dpkg-buildpackage: info: source version 1.38.0-2
dpkg-buildpackage: info: source distribution unstable
 dpkg-source --before-build r-bioc-shortread-1.38.0
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: ShortRead Version: 1.38.0
I: Building using R version 3.4.4-1
I: R API version: r-api-3.4
I: Using built-time from d/changelog: Sun, 06 May 2018 08:02:34 +0200
	mkdir -p /<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/lib/R/site-library
	R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/lib/R/site-library --clean . "--built-timestamp='Sun, 06 May 2018 08:02:34 +0200'"
* installing *source* package 'ShortRead' ...
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 for gzeof in -lz... yes
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 size of unsigned long... 4
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  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c Biostrings_stubs.c -o Biostrings_stubs.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c IRanges_stubs.c -o IRanges_stubs.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c R_init_ShortRead.c -o R_init_ShortRead.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c XVector_stubs.c -o XVector_stubs.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c alphabet.c -o alphabet.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c io.c -o io.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c io_bowtie.c -o io_bowtie.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c io_soap.c -o io_soap.o
g++  -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_LIBZ=1 -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 -DSIZEOF_UNSIGNED_LONG=4 -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c readBfaToc.cc -o readBfaToc.o
readBfaToc.cc: In function 'SEXPREC* readBfaToc(SEXP)':
readBfaToc.cc:35:7: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
       (void) fread( seq_name, sizeof(char), name_len, fp );
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
readBfaToc.cc:36:7: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
       (void) fread( &seq_ori_len, sizeof(int), 1, fp );
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
readBfaToc.cc:37:7: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
       (void) fread( &seq_len, sizeof(int), 1, fp );
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++  -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_LIBZ=1 -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 -DSIZEOF_UNSIGNED_LONG=4 -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c read_maq_map.cc -o read_maq_map.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c sampler.c -o sampler.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c trim.c -o trim.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c util.c -o util.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG  -I"/usr/lib/R/site-library/S4Vectors/include" -I"/usr/lib/R/site-library/IRanges/include" -I"/usr/lib/R/site-library/XVector/include" -I"/usr/lib/R/site-library/Biostrings/include"   -fopenmp -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-1Z1lf8/r-base-3.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c xsnap.c -o xsnap.o
g++ -shared -L/usr/lib/R/lib -Wl,-z,relro -o ShortRead.so Biostrings_stubs.o IRanges_stubs.o R_init_ShortRead.o S4Vectors_stubs.o XVector_stubs.o alphabet.o io.o io_bowtie.o io_soap.o readBfaToc.o read_maq_map.o sampler.o trim.o util.o xsnap.o -lz -fopenmp -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-shortread/usr/lib/R/site-library/ShortRead/libs
** R
** inst
** preparing package for lazy loading
code for methods in class "ShortReadFile" was not checked for suspicious field assignments (recommended package 'codetools' not available?)
code for methods in class "FastqFileReader" was not checked for suspicious field assignments (recommended package 'codetools' not available?)
code for methods in class "QAData" was not checked for suspicious field assignments (recommended package 'codetools' not available?)
code for methods in class "Snapshot" was not checked for suspicious field assignments (recommended package 'codetools' not available?)
code for methods in class "SpTrellis" was not checked for suspicious field assignments (recommended package 'codetools' not available?)
code for methods in class "FastqSampler" was not checked for suspicious field assignments (recommended package 'codetools' not available?)
code for methods in class "FastqStreamer" was not checked for suspicious field assignments (recommended package 'codetools' not available?)
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ShortRead)
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-bioc-biocgenerics for Depends:BiocGenerics (>= 0.23.3)
I: Using r-bioc-biocparallel for Depends:BiocParallel
I: Using r-bioc-biostrings for Depends:Biostrings (>= 2.47.6)
I: Using r-bioc-rsamtools for Depends:Rsamtools (>= 1.31.2)
I: Using r-bioc-genomicalignments for Depends:GenomicAlignments (>= 1.15.6)
W: Cannot find a debian package for Suggests:BiocStyle
I: Using r-cran-runit for Suggests:RUnit
I: Using r-bioc-biomart for Suggests:biomaRt
I: Using r-bioc-genomicfeatures for Suggests:GenomicFeatures
W: Cannot find a debian package for Suggests:yeastNagalakshmi
I: Using r-bioc-biobase for Imports:Biobase
I: Using r-bioc-s4vectors for Imports:S4Vectors (>= 0.17.25)
I: Using r-bioc-iranges for Imports:IRanges (>= 2.13.12)
I: Using r-bioc-genomeinfodb for Imports:GenomeInfoDb (>= 1.15.2)
I: Using r-bioc-genomicranges for Imports:GenomicRanges (>= 1.31.8)
I: Using r-cran-hwriter for Imports:hwriter
I: Using r-cran-lattice for Imports:lattice
I: Using r-cran-latticeextra for Imports:latticeExtra
   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
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   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_installinit -a -O--buildsystem=R
   dh_installsystemd -a -O--buildsystem=R
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   dh_installmime -a -O--buildsystem=R
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   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
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   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-shortread/usr/lib/R/site-library/ShortRead/libs/ShortRead.so was not linked against libgomp.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-shortread' in '../r-bioc-shortread_1.38.0-2_armhf.deb'.
dpkg-deb: building package 'r-bioc-shortread-dbgsym' in '../r-bioc-shortread-dbgsym_1.38.0-2_armhf.deb'.
 dpkg-genbuildinfo --build=any
 dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../r-bioc-shortread_1.38.0-2_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
 dpkg-source --after-build r-bioc-shortread-1.38.0
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2018-05-25T10:57:16Z

Finished
--------

I: Built successfully

+------------------------------------------------------------------------------+
| Post Build Chroot                                                            |
+------------------------------------------------------------------------------+


+------------------------------------------------------------------------------+
| Changes                                                                      |
+------------------------------------------------------------------------------+


r-bioc-shortread_1.38.0-2_armhf.changes:
----------------------------------------

Format: 1.8
Date: Sun, 06 May 2018 08:02:34 +0200
Source: r-bioc-shortread
Binary: r-bioc-shortread
Architecture: armhf
Version: 1.38.0-2
Distribution: buster-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
 r-bioc-shortread - GNU R classes and methods for high-throughput short-read sequenci
Changes:
 r-bioc-shortread (1.38.0-2) unstable; urgency=medium
 .
   * Fix Maintainer and Vcs-fields
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 c353edf1ec8b1c792a0c832688d88e7c37c99c95 4289424 r-bioc-shortread_1.38.0-2_armhf.deb
Checksums-Sha256:
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 d0d56a18c67a1a89c6a67d83e51c171c0522a96ea00866f6fb2035b9c8c181d9 9305 r-bioc-shortread_1.38.0-2_armhf.buildinfo
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Files:
 253e515cbdf27bf4ed0a2983fe8175c2 139096 debug optional r-bioc-shortread-dbgsym_1.38.0-2_armhf.deb
 f62fceedcc389b96610d98f6797d11f7 9305 gnu-r optional r-bioc-shortread_1.38.0-2_armhf.buildinfo
 fe308aa66ef952d4a4a283a6df34ae09 4289424 gnu-r optional r-bioc-shortread_1.38.0-2_armhf.deb

+------------------------------------------------------------------------------+
| Package contents                                                             |
+------------------------------------------------------------------------------+


r-bioc-shortread-dbgsym_1.38.0-2_armhf.deb
------------------------------------------

 new Debian package, version 2.0.
 size 139096 bytes: control archive=544 bytes.
     402 bytes,    12 lines      control              
     106 bytes,     1 lines      md5sums              
 Package: r-bioc-shortread-dbgsym
 Source: r-bioc-shortread
 Version: 1.38.0-2
 Auto-Built-Package: debug-symbols
 Architecture: armhf
 Maintainer: Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
 Installed-Size: 174
 Depends: r-bioc-shortread (= 1.38.0-2)
 Section: debug
 Priority: optional
 Description: debug symbols for r-bioc-shortread
 Build-Ids: 4563d3a22bf96b256f0979bf0ae857d856a60e10

drwxr-xr-x root/root         0 2018-05-06 06:02 ./
drwxr-xr-x root/root         0 2018-05-06 06:02 ./usr/
drwxr-xr-x root/root         0 2018-05-06 06:02 ./usr/lib/
drwxr-xr-x root/root         0 2018-05-06 06:02 ./usr/lib/debug/
drwxr-xr-x root/root         0 2018-05-06 06:02 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root         0 2018-05-06 06:02 ./usr/lib/debug/.build-id/45/
-rw-r--r-- root/root    167040 2018-05-06 06:02 ./usr/lib/debug/.build-id/45/63d3a22bf96b256f0979bf0ae857d856a60e10.debug
drwxr-xr-x root/root         0 2018-05-06 06:02 ./usr/share/
drwxr-xr-x root/root         0 2018-05-06 06:02 ./usr/share/doc/
lrwxrwxrwx root/root         0 2018-05-06 06:02 ./usr/share/doc/r-bioc-shortread-dbgsym -> r-bioc-shortread


r-bioc-shortread_1.38.0-2_armhf.deb
-----------------------------------

 new Debian package, version 2.0.
 size 4289424 bytes: control archive=4120 bytes.
    1257 bytes,    17 lines      control              
   10811 bytes,   113 lines      md5sums              
 Package: r-bioc-shortread
 Version: 1.38.0-2
 Architecture: armhf
 Maintainer: Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
 Installed-Size: 6068
 Depends: r-base-core (>= 3.4.4-1), r-api-3.4, r-bioc-biocgenerics (>= 0.23.3), r-bioc-biocparallel, r-bioc-biostrings (>= 2.47.6), r-bioc-rsamtools (>= 1.31.2), r-bioc-genomicalignments (>= 1.15.6), r-bioc-biobase, r-bioc-s4vectors (>= 0.17.25), r-bioc-iranges (>= 2.13.12), r-bioc-genomeinfodb (>= 1.15.2), r-bioc-genomicranges (>= 1.31.8), r-cran-hwriter, r-cran-lattice, r-cran-latticeextra, libc6 (>= 2.7), libgcc1 (>= 1:3.5), libgomp1 (>= 4.2.1), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4)
 Suggests: r-cran-runit, r-bioc-biomart, r-bioc-genomicfeatures
 Section: gnu-r
 Priority: optional
 Homepage: https://bioconductor.org/packages/ShortRead/
 Description: GNU R classes and methods for high-throughput short-read sequencing data
  This BioConductor module is a package for input, quality assessment,
  manipulation and output of high-throughput sequencing data. ShortRead is
  provided in the R and Bioconductor environments, allowing ready access
  to additional facilities for advanced statistical analysis, data
  transformation, visualization and integration with diverse genomic
  resources.

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-rw-r--r-- root/root     31740 2018-05-06 06:02 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_1_sequence.txt
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| Cleanup                                                                      |
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Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use

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| Summary                                                                      |
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Build Architecture: armhf
Build-Space: 19884
Build-Time: 75
Distribution: buster-staging
Host Architecture: armhf
Install-Time: 627
Job: r-bioc-shortread_1.38.0-2
Machine Architecture: armhf
Package: r-bioc-shortread
Package-Time: 725
Source-Version: 1.38.0-2
Space: 19884
Status: successful
Version: 1.38.0-2
--------------------------------------------------------------------------------
Finished at 2018-05-25T10:57:16Z
Build needed 00:12:05, 19884k disk space
Raspbian Package Auto-Building

Build log for r-bioc-shortread (1.38.0-2) on armhf
