Raspbian Package Auto-Building

r-bioc-shortread → 1.30.0-1 → armhf → 2016-05-15 05:50:20

sbuild (Debian sbuild) 0.68.0 (15 Jan 2016) on bm-wb-01

+==============================================================================+
| r-bioc-shortread 1.30.0-1 (armhf)                          15 May 2016 05:30 |
+==============================================================================+

Package: r-bioc-shortread
Version: 1.30.0-1
Source Version: 1.30.0-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf

I: NOTICE: Log filtering will replace 'build/r-bioc-shortread-SeRN15/r-bioc-shortread-1.30.0' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-shortread-SeRN15' with '<<BUILDDIR>>'
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/stretch-staging-armhf-sbuild-0f1a3def-e8af-4bbf-9423-7a511e2970b5' with '<<CHROOT>>'

+------------------------------------------------------------------------------+
| Update chroot                                                                |
+------------------------------------------------------------------------------+

Get:1 http://172.17.0.1/private stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private stretch-staging/main Sources [8964 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.0 MB]
Fetched 20.0 MB in 23s (861 kB/s)
Reading package lists...

+------------------------------------------------------------------------------+
| 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 'Svn' version control system at:
svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-shortread/trunk/
Need to get 5155 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main r-bioc-shortread 1.30.0-1 (dsc) [2221 B]
Get:2 http://172.17.0.1/private stretch-staging/main r-bioc-shortread 1.30.0-1 (tar) [5147 kB]
Get:3 http://172.17.0.1/private stretch-staging/main r-bioc-shortread 1.30.0-1 (diff) [5144 B]
Fetched 5155 kB in 0s (7291 kB/s)
Download complete and in download only mode

+------------------------------------------------------------------------------+
| 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-tgTBkF/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-tgTBkF/apt_archive ./ InRelease
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Get:5 file:/<<BUILDDIR>>/resolver-tgTBkF/apt_archive ./ Packages [526 B]
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Ign:5 file:/<<BUILDDIR>>/resolver-tgTBkF/apt_archive ./ Packages
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Reading package lists...
W: file:///<<BUILDDIR>>/resolver-tgTBkF/apt_archive/./Release.gpg: Signature by key 3493EC2B8E6DC280C121C60435506D9A48F77B2E uses weak digest algorithm (SHA1)
Reading package lists...

Install core build dependencies (apt-based resolver)
----------------------------------------------------

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
  manpages
Use 'apt autoremove' to remove it.
The following NEW packages will be installed:
  sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 35 not upgraded.
Need to get 0 B/768 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-tgTBkF/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [768 B]
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package sbuild-build-depends-core-dummy.
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(Reading database ... 12650 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...

+------------------------------------------------------------------------------+
| Check architectures                                                          |
+------------------------------------------------------------------------------+

Arch check ok (armhf included in any)

+------------------------------------------------------------------------------+
| Install package build dependencies                                           |
+------------------------------------------------------------------------------+


Setup apt archive
-----------------

Merged Build-Depends: debhelper (>= 9), cdbs, r-base-dev, r-cran-latticeextra, r-bioc-biobase (>= 2.26.0), r-bioc-genomicalignments (>= 1.8.0), r-cran-hwriter
Filtered Build-Depends: debhelper (>= 9), cdbs, r-base-dev, r-cran-latticeextra, r-bioc-biobase (>= 2.26.0), r-bioc-genomicalignments (>= 1.8.0), r-cran-hwriter
dpkg-deb: building package 'sbuild-build-depends-r-bioc-shortread-dummy' in '/<<BUILDDIR>>/resolver-klciAy/apt_archive/sbuild-build-depends-r-bioc-shortread-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ Sources [280 B]
Get:5 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ Packages [597 B]
Ign:4 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ Sources
Ign:5 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ Packages
Get:4 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ Sources [397 B]
Get:5 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ Packages [894 B]
Reading package lists...
W: file:///<<BUILDDIR>>/resolver-klciAy/apt_archive/./Release.gpg: Signature by key 3493EC2B8E6DC280C121C60435506D9A48F77B2E uses weak digest algorithm (SHA1)
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 package was automatically installed and is no longer required:
  manpages
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
  autoconf automake autopoint autotools-dev bsdmainutils ca-certificates cdbs
  cpp-5 debhelper dh-autoreconf dh-strip-nondeterminism file fontconfig
  fontconfig-config fonts-dejavu-core g++-5 gcc-5 gcc-5-base gcc-6-base
  gettext gettext-base gfortran gfortran-5 groff-base intltool-debian
  libarchive-zip-perl libasan2 libatomic1 libblas-common libblas-dev libblas3
  libbsd0 libbz2-dev libcairo2 libcc1-0 libcroco3 libcurl3 libdatrie1
  libexpat1 libffi6 libfile-stripnondeterminism-perl libfontconfig1
  libfreetype6 libgcc-5-dev libgcc1 libgfortran-5-dev libgfortran3
  libglib2.0-0 libgnutls30 libgomp1 libgraphite2-3 libgssapi-krb5-2
  libharfbuzz0b libhogweed4 libice6 libicu55 libidn11 libjbig0 libjpeg-dev
  libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3
  libkrb5support0 liblapack-dev liblapack3 libldap-2.4-2 liblzma-dev libmagic1
  libncurses5-dev libnettle6 libnghttp2-14 libp11-kit0 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
  libpng16-16 libreadline-dev libreadline6-dev librtmp1 libsasl2-2
  libsasl2-modules-db libsigsegv2 libsm6 libsqlite3-0 libssh2-1 libssl1.0.2
  libstdc++-5-dev libstdc++6 libtasn1-6 libtcl8.6 libthai-data libthai0
  libtiff5 libtimedate-perl libtinfo-dev libtk8.6 libtool libubsan0
  libunistring0 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0
  libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6
  littler m4 man-db openssl po-debconf r-base-core r-base-dev r-bioc-biobase
  r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings
  r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicranges
  r-bioc-iranges r-bioc-rsamtools r-bioc-s4vectors r-bioc-summarizedexperiment
  r-bioc-xvector r-cran-base64enc r-cran-batchjobs r-cran-bbmisc r-cran-bitops
  r-cran-brew r-cran-checkmate r-cran-codetools r-cran-dbi r-cran-digest
  r-cran-fail r-cran-foreach r-cran-futile.logger r-cran-futile.options
  r-cran-hwriter r-cran-iterators r-cran-lambda.r r-cran-lattice
  r-cran-latticeextra r-cran-littler r-cran-magrittr r-cran-pkgkitten
  r-cran-plyr r-cran-rcolorbrewer r-cran-rcpp r-cran-rsqlite r-cran-sendmailr
  r-cran-snow r-cran-stringi r-cran-stringr ucf unzip x11-common xdg-utils zip
  zlib1g-dev
Suggested packages:
  autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
  vacation devscripts gcc-5-locales dh-make gcc-5-doc libstdc++6-5-dbg
  libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan2-dbg
  liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libmpx0-dbg
  libquadmath0-dbg gettext-doc libasprintf-dev libgettextpo-dev gfortran-doc
  gfortran-5-doc libgfortran3-dbg groff liblapack-doc-man liblapack-doc
  gnutls-bin krb5-doc krb5-user liblzma-doc ncurses-doc readline-doc
  libstdc++-5-doc tcl8.6 tk8.6 libtool-doc gcj-jdk 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-mpi
  r-cran-rmysql r-cran-getopt r-cran-inline r-cran-runit r-cran-rmpi
  r-cran-rsprng r-cran-rlecuyer gvfs-bin
Recommended packages:
  curl | wget | lynx-cur bzip2-doc libglib2.0-data shared-mime-info
  xdg-user-dirs krb5-locales libpng-tools libsasl2-modules libltdl-dev
  xml-core libmail-sendmail-perl r-recommended r-doc-html r-cran-doparallel
  r-bioc-shortread r-bioc-annotate r-cran-mass r-cran-crayon r-cran-domc
  r-cran-abind 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 ca-certificates cdbs
  debhelper dh-autoreconf dh-strip-nondeterminism file fontconfig
  fontconfig-config fonts-dejavu-core gcc-6-base gettext gettext-base gfortran
  gfortran-5 groff-base intltool-debian libarchive-zip-perl libblas-common
  libblas-dev libblas3 libbsd0 libbz2-dev libcairo2 libcroco3 libcurl3
  libdatrie1 libexpat1 libffi6 libfile-stripnondeterminism-perl libfontconfig1
  libfreetype6 libgfortran-5-dev libgfortran3 libglib2.0-0 libgnutls30
  libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhogweed4 libice6 libicu55
  libidn11 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev
  libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3
  libldap-2.4-2 liblzma-dev libmagic1 libncurses5-dev libnettle6 libnghttp2-14
  libp11-kit0 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 libpng16-16 libreadline-dev
  libreadline6-dev librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6
  libsqlite3-0 libssh2-1 libssl1.0.2 libtasn1-6 libtcl8.6 libthai-data
  libthai0 libtiff5 libtimedate-perl libtinfo-dev libtk8.6 libtool
  libunistring0 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0
  libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6
  littler m4 man-db openssl po-debconf r-base-core r-base-dev r-bioc-biobase
  r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings
  r-bioc-genomeinfodb r-bioc-genomicalignments r-bioc-genomicranges
  r-bioc-iranges r-bioc-rsamtools r-bioc-s4vectors r-bioc-summarizedexperiment
  r-bioc-xvector r-cran-base64enc r-cran-batchjobs r-cran-bbmisc r-cran-bitops
  r-cran-brew r-cran-checkmate r-cran-codetools r-cran-dbi r-cran-digest
  r-cran-fail r-cran-foreach r-cran-futile.logger r-cran-futile.options
  r-cran-hwriter r-cran-iterators r-cran-lambda.r r-cran-lattice
  r-cran-latticeextra r-cran-littler r-cran-magrittr r-cran-pkgkitten
  r-cran-plyr r-cran-rcolorbrewer r-cran-rcpp r-cran-rsqlite r-cran-sendmailr
  r-cran-snow r-cran-stringi r-cran-stringr
  sbuild-build-depends-r-bioc-shortread-dummy ucf unzip x11-common xdg-utils
  zip zlib1g-dev
The following packages will be upgraded:
  cpp-5 g++-5 gcc-5 gcc-5-base libasan2 libatomic1 libcc1-0 libgcc-5-dev
  libgcc1 libgomp1 libstdc++-5-dev libstdc++6 libubsan0
13 upgraded, 165 newly installed, 0 to remove and 22 not upgraded.
Need to get 194 MB/194 MB of archives.
After this operation, 255 MB of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-klciAy/apt_archive ./ sbuild-build-depends-r-bioc-shortread-dummy 0.invalid.0 [834 B]
Get:2 http://172.17.0.1/private stretch-staging/main armhf gcc-6-base armhf 6.1.1-1+rpi1 [170 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf libgcc1 armhf 1:6.1.1-1+rpi1 [38.2 kB]
Get:4 http://172.17.0.1/private stretch-staging/main armhf libstdc++6 armhf 6.1.1-1+rpi1 [332 kB]
Get:5 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-7 [1083 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf libbsd0 armhf 0.8.3-1 [89.0 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.10 [177 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf libexpat1 armhf 2.1.1-1 [60.4 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf libfreetype6 armhf 2.6.3-3 [384 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf ucf all 3.0036 [70.2 kB]
Get:13 http://172.17.0.1/private stretch-staging/main armhf fonts-dejavu-core all 2.35-1 [1064 kB]
Get:14 http://172.17.0.1/private stretch-staging/main armhf fontconfig-config all 2.11.0-6.4 [271 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf libfontconfig1 armhf 2.11.0-6.4 [313 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf fontconfig armhf 2.11.0-6.4 [401 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf libjbig0 armhf 2.1-3.1 [27.5 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf libpaper1 armhf 1.1.24+nmu4 [21.4 kB]
Get:19 http://172.17.0.1/private stretch-staging/main armhf libpcrecpp0v5 armhf 2:8.38-3.1 [148 kB]
Get:20 http://172.17.0.1/private stretch-staging/main armhf libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf libxdmcp6 armhf 1:1.1.2-1.1 [24.9 kB]
Get:23 http://172.17.0.1/private stretch-staging/main armhf libxcb1 armhf 1.11.1-1 [40.9 kB]
Get:24 http://172.17.0.1/private stretch-staging/main armhf libx11-data all 2:1.6.3-1 [128 kB]
Get:25 http://172.17.0.1/private stretch-staging/main armhf libx11-6 armhf 2:1.6.3-1 [678 kB]
Get:26 http://172.17.0.1/private stretch-staging/main armhf libxext6 armhf 2:1.3.3-1 [48.1 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf libxrender1 armhf 1:0.9.9-2 [28.9 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf libxft2 armhf 2.3.2-1 [48.3 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf x11-common all 1:7.7+15 [251 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf libxss1 armhf 1:1.2.2-1 [16.8 kB]
Get:31 http://172.17.0.1/private stretch-staging/main armhf libgomp1 armhf 6.1.1-1+rpi1 [63.5 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf g++-5 armhf 5.3.1-17 [24.5 MB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf gcc-5 armhf 5.3.1-17 [5288 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf cpp-5 armhf 5.3.1-17 [22.9 MB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf libcc1-0 armhf 6.1.1-1+rpi1 [24.9 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf libatomic1 armhf 6.1.1-1+rpi1 [6804 B]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libasan2 armhf 5.3.1-17 [227 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf libubsan0 armhf 6.1.1-1+rpi1 [90.5 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf libstdc++-5-dev armhf 5.3.1-17 [1430 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf libgcc-5-dev armhf 5.3.1-17 [449 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf gcc-5-base armhf 5.3.1-17 [171 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf libssl1.0.2 armhf 1.0.2h-1 [889 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.25-2 [250 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.25-2 [61.2 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf gettext-base armhf 0.19.7-2 [111 kB]
Get:46 http://172.17.0.1/private stretch-staging/main armhf libnettle6 armhf 3.2-1 [202 kB]
Get:47 http://172.17.0.1/private stretch-staging/main armhf libhogweed4 armhf 3.2-1 [126 kB]
Get:48 http://172.17.0.1/private stretch-staging/main armhf libidn11 armhf 1.32-3 [110 kB]
Get:49 http://172.17.0.1/private stretch-staging/main armhf libffi6 armhf 3.2.1-4 [18.5 kB]
Get:50 http://172.17.0.1/private stretch-staging/main armhf libp11-kit0 armhf 0.23.2-3 [93.3 kB]
Get:51 http://172.17.0.1/private stretch-staging/main armhf libtasn1-6 armhf 4.8-1 [44.1 kB]
Get:52 http://172.17.0.1/private stretch-staging/main armhf libgnutls30 armhf 3.4.11-4 [718 kB]
Get:53 http://172.17.0.1/private stretch-staging/main armhf libkeyutils1 armhf 1.5.9-9 [11.9 kB]
Get:54 http://172.17.0.1/private stretch-staging/main armhf libkrb5support0 armhf 1.13.2+dfsg-5 [56.6 kB]
Get:55 http://172.17.0.1/private stretch-staging/main armhf libk5crypto3 armhf 1.13.2+dfsg-5 [110 kB]
Get:56 http://172.17.0.1/private stretch-staging/main armhf libkrb5-3 armhf 1.13.2+dfsg-5 [259 kB]
Get:57 http://172.17.0.1/private stretch-staging/main armhf libgssapi-krb5-2 armhf 1.13.2+dfsg-5 [130 kB]
Get:58 http://172.17.0.1/private stretch-staging/main armhf libsasl2-modules-db armhf 2.1.26.dfsg1-15 [65.6 kB]
Get:59 http://172.17.0.1/private stretch-staging/main armhf libsasl2-2 armhf 2.1.26.dfsg1-15 [96.7 kB]
Get:60 http://172.17.0.1/private stretch-staging/main armhf libldap-2.4-2 armhf 2.4.42+dfsg-2+rpi1+b2 [198 kB]
Get:61 http://172.17.0.1/private stretch-staging/main armhf libsqlite3-0 armhf 3.12.2-1 [464 kB]
Get:62 http://172.17.0.1/private stretch-staging/main armhf libicu55 armhf 55.1-7 [7380 kB]
Get:63 http://172.17.0.1/private stretch-staging/main armhf libxml2 armhf 2.9.3+dfsg1-1 [800 kB]
Get:64 http://172.17.0.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:65 http://172.17.0.1/private stretch-staging/main armhf m4 armhf 1.4.17-5 [239 kB]
Get:66 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:67 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20160430.1 [72.6 kB]
Get:68 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-4 [735 kB]
Get:69 http://172.17.0.1/private stretch-staging/main armhf autopoint all 0.19.7-2 [424 kB]
Get:70 http://172.17.0.1/private stretch-staging/main armhf openssl armhf 1.0.2h-1 [667 kB]
Get:71 http://172.17.0.1/private stretch-staging/main armhf ca-certificates all 20160104 [200 kB]
Get:72 http://172.17.0.1/private stretch-staging/main armhf cdbs all 0.4.130 [76.4 kB]
Get:73 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.48.0-1 [2540 kB]
Get:74 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-1 [131 kB]
Get:75 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.7-2 [1400 kB]
Get:76 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:77 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.19 [249 kB]
Get:78 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.57-1 [95.1 kB]
Get:79 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.016-1 [11.9 kB]
Get:80 http://172.17.0.1/private stretch-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:81 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.016-1 [6998 B]
Get:82 http://172.17.0.1/private stretch-staging/main armhf libtool all 2.4.6-0.1 [200 kB]
Get:83 http://172.17.0.1/private stretch-staging/main armhf dh-autoreconf all 12 [15.8 kB]
Get:84 http://172.17.0.1/private stretch-staging/main armhf debhelper all 9.20160403 [800 kB]
Get:85 http://172.17.0.1/private stretch-staging/main armhf libgfortran3 armhf 6.1.1-1+rpi1 [166 kB]
Get:86 http://172.17.0.1/private stretch-staging/main armhf libgfortran-5-dev armhf 5.3.1-17 [182 kB]
Get:87 http://172.17.0.1/private stretch-staging/main armhf gfortran-5 armhf 5.3.1-17 [23.7 MB]
Get:88 http://172.17.0.1/private stretch-staging/main armhf gfortran armhf 4:5.3.1-1+rpi1 [1362 B]
Get:89 http://172.17.0.1/private stretch-staging/main armhf libblas-common armhf 3.6.0-2 [13.5 kB]
Get:90 http://172.17.0.1/private stretch-staging/main armhf libblas3 armhf 3.6.0-2 [110 kB]
Get:91 http://172.17.0.1/private stretch-staging/main armhf libblas-dev armhf 3.6.0-2 [116 kB]
Get:92 http://172.17.0.1/private stretch-staging/main armhf libbz2-dev armhf 1.0.6-8 [27.8 kB]
Get:93 http://172.17.0.1/private stretch-staging/main armhf libpixman-1-0 armhf 0.33.6-1 [454 kB]
Get:94 http://172.17.0.1/private stretch-staging/main armhf libxcb-render0 armhf 1.11.1-1 [17.0 kB]
Get:95 http://172.17.0.1/private stretch-staging/main armhf libxcb-shm0 armhf 1.11.1-1 [11.5 kB]
Get:96 http://172.17.0.1/private stretch-staging/main armhf libcairo2 armhf 1.14.6-1 [688 kB]
Get:97 http://172.17.0.1/private stretch-staging/main armhf libnghttp2-14 armhf 1.10.0-1 [72.2 kB]
Get:98 http://172.17.0.1/private stretch-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-1 [54.2 kB]
Get:99 http://172.17.0.1/private stretch-staging/main armhf libssh2-1 armhf 1.5.0-2.1 [121 kB]
Get:100 http://172.17.0.1/private stretch-staging/main armhf libcurl3 armhf 7.47.0-1 [247 kB]
Get:101 http://172.17.0.1/private stretch-staging/main armhf libdatrie1 armhf 0.2.10-2 [32.5 kB]
Get:102 http://172.17.0.1/private stretch-staging/main armhf libgraphite2-3 armhf 1.3.8-1 [62.5 kB]
Get:103 http://172.17.0.1/private stretch-staging/main armhf libharfbuzz0b armhf 1.0.1-1+b1 [501 kB]
Get:104 http://172.17.0.1/private stretch-staging/main armhf libice6 armhf 2:1.0.9-1+b1 [51.9 kB]
Get:105 http://172.17.0.1/private stretch-staging/main armhf libjpeg62-turbo armhf 1:1.4.2-2 [104 kB]
Get:106 http://172.17.0.1/private stretch-staging/main armhf libjpeg62-turbo-dev armhf 1:1.4.2-2 [413 kB]
Get:107 http://172.17.0.1/private stretch-staging/main armhf libjpeg-dev all 1:1.4.2-2 [51.7 kB]
Get:108 http://172.17.0.1/private stretch-staging/main armhf liblapack3 armhf 3.6.0-2 [1382 kB]
Get:109 http://172.17.0.1/private stretch-staging/main armhf liblapack-dev armhf 3.6.0-2 [1355 kB]
Get:110 http://172.17.0.1/private stretch-staging/main armhf liblzma-dev armhf 5.1.1alpha+20120614-2.1 [248 kB]
Get:111 http://172.17.0.1/private stretch-staging/main armhf libtinfo-dev armhf 6.0+20160319-1 [65.7 kB]
Get:112 http://172.17.0.1/private stretch-staging/main armhf libncurses5-dev armhf 6.0+20160319-1 [153 kB]
Get:113 http://172.17.0.1/private stretch-staging/main armhf libthai-data all 0.1.24-2 [163 kB]
Get:114 http://172.17.0.1/private stretch-staging/main armhf libthai0 armhf 0.1.24-2 [46.6 kB]
Get:115 http://172.17.0.1/private stretch-staging/main armhf libpango-1.0-0 armhf 1.40.1-1 [293 kB]
Get:116 http://172.17.0.1/private stretch-staging/main armhf libpangoft2-1.0-0 armhf 1.40.1-1 [231 kB]
Get:117 http://172.17.0.1/private stretch-staging/main armhf libpangocairo-1.0-0 armhf 1.40.1-1 [220 kB]
Get:118 http://172.17.0.1/private stretch-staging/main armhf libpaper-utils armhf 1.1.24+nmu4 [17.2 kB]
Get:119 http://172.17.0.1/private stretch-staging/main armhf libpcre16-3 armhf 2:8.38-3.1 [229 kB]
Get:120 http://172.17.0.1/private stretch-staging/main armhf libpcre32-3 armhf 2:8.38-3.1 [223 kB]
Get:121 http://172.17.0.1/private stretch-staging/main armhf libpcre3-dev armhf 2:8.38-3.1 [556 kB]
Get:122 http://172.17.0.1/private stretch-staging/main armhf libpng16-16 armhf 1.6.21-4 [257 kB]
Get:123 http://172.17.0.1/private stretch-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
Get:124 http://172.17.0.1/private stretch-staging/main armhf libpng-dev armhf 1.6.21-4 [223 kB]
Get:125 http://172.17.0.1/private stretch-staging/main armhf libreadline6-dev armhf 6.3-8+b3 [105 kB]
Get:126 http://172.17.0.1/private stretch-staging/main armhf libreadline-dev armhf 6.3-8+b3 [958 B]
Get:127 http://172.17.0.1/private stretch-staging/main armhf libsm6 armhf 2:1.2.2-1+b1 [31.2 kB]
Get:128 http://172.17.0.1/private stretch-staging/main armhf libtcl8.6 armhf 8.6.5+dfsg-2 [862 kB]
Get:129 http://172.17.0.1/private stretch-staging/main armhf libtiff5 armhf 4.0.6-1 [201 kB]
Get:130 http://172.17.0.1/private stretch-staging/main armhf libtk8.6 armhf 8.6.5-1 [657 kB]
Get:131 http://172.17.0.1/private stretch-staging/main armhf libxt6 armhf 1:1.1.5-1 [155 kB]
Get:132 http://172.17.0.1/private stretch-staging/main armhf zip armhf 3.0-11 [212 kB]
Get:133 http://172.17.0.1/private stretch-staging/main armhf unzip armhf 6.0-20 [142 kB]
Get:134 http://172.17.0.1/private stretch-staging/main armhf xdg-utils all 1.1.1-1 [71.1 kB]
Get:135 http://172.17.0.1/private stretch-staging/main armhf r-base-core armhf 3.3.0-1 [20.7 MB]
Get:136 http://172.17.0.1/private stretch-staging/main armhf r-cran-littler armhf 0.3.0-2 [64.7 kB]
Get:137 http://172.17.0.1/private stretch-staging/main armhf littler all 0.3.0-2 [11.0 kB]
Get:138 http://172.17.0.1/private stretch-staging/main armhf r-base-dev all 3.3.0-1 [4292 B]
Get:139 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biocgenerics all 0.18.0-1 [475 kB]
Get:140 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biobase armhf 2.32.0-1 [1995 kB]
Get:141 http://172.17.0.1/private stretch-staging/main armhf r-cran-checkmate armhf 1.6.0-1 [268 kB]
Get:142 http://172.17.0.1/private stretch-staging/main armhf r-cran-bbmisc armhf 1.9-2 [279 kB]
Get:143 http://172.17.0.1/private stretch-staging/main armhf r-cran-brew armhf 1.0-6-1 [61.3 kB]
Get:144 http://172.17.0.1/private stretch-staging/main armhf r-cran-digest armhf 0.6.9-1 [103 kB]
Get:145 http://172.17.0.1/private stretch-staging/main armhf r-cran-dbi armhf 0.4-1 [200 kB]
Get:146 http://172.17.0.1/private stretch-staging/main armhf r-cran-rsqlite armhf 1.0.0-2 [302 kB]
Get:147 http://172.17.0.1/private stretch-staging/main armhf r-cran-pkgkitten all 0.1.3-1 [18.3 kB]
Get:148 http://172.17.0.1/private stretch-staging/main armhf r-cran-rcpp armhf 0.12.4-1 [2149 kB]
Get:149 http://172.17.0.1/private stretch-staging/main armhf r-cran-plyr armhf 1.8.3-2 [728 kB]
Get:150 http://172.17.0.1/private stretch-staging/main armhf r-cran-magrittr armhf 1.5-3 [146 kB]
Get:151 http://172.17.0.1/private stretch-staging/main armhf r-cran-stringi armhf 1.0-1-1 [623 kB]
Get:152 http://172.17.0.1/private stretch-staging/main armhf r-cran-stringr all 1.0.0-1 [76.6 kB]
Get:153 http://172.17.0.1/private stretch-staging/main armhf r-cran-base64enc armhf 0.1-2-1 [19.6 kB]
Get:154 http://172.17.0.1/private stretch-staging/main armhf r-cran-sendmailr armhf 1.2-1-1 [29.0 kB]
Get:155 http://172.17.0.1/private stretch-staging/main armhf r-cran-fail armhf 1.3-1 [43.2 kB]
Get:156 http://172.17.0.1/private stretch-staging/main armhf r-cran-batchjobs armhf 1.6-1 [422 kB]
Get:157 http://172.17.0.1/private stretch-staging/main armhf r-cran-codetools all 0.2-14-1 [46.5 kB]
Get:158 http://172.17.0.1/private stretch-staging/main armhf r-cran-iterators all 1.0.8-1 [306 kB]
Get:159 http://172.17.0.1/private stretch-staging/main armhf r-cran-foreach all 1.4.3-1 [371 kB]
Get:160 http://172.17.0.1/private stretch-staging/main armhf r-cran-lambda.r all 1.1.7-3 [66.4 kB]
Get:161 http://172.17.0.1/private stretch-staging/main armhf r-cran-futile.options all 1.0.0-2 [15.4 kB]
Get:162 http://172.17.0.1/private stretch-staging/main armhf r-cran-futile.logger all 1.4.1-3 [84.3 kB]
Get:163 http://172.17.0.1/private stretch-staging/main armhf r-cran-snow all 1:0.4.1-1 [64.9 kB]
Get:164 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biocparallel all 1.6.0-1 [626 kB]
Get:165 http://172.17.0.1/private stretch-staging/main armhf r-bioc-s4vectors armhf 0.10.0-1 [912 kB]
Get:166 http://172.17.0.1/private stretch-staging/main armhf r-bioc-iranges armhf 2.6.0-1 [1417 kB]
Get:167 http://172.17.0.1/private stretch-staging/main armhf r-bioc-xvector armhf 0.12.0-1 [329 kB]
Get:168 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biostrings armhf 2.40.0-1 [13.5 MB]
Get:169 http://172.17.0.1/private stretch-staging/main armhf r-bioc-genomeinfodb all 1.8.0-1 [19.1 MB]
Get:170 http://172.17.0.1/private stretch-staging/main armhf r-cran-bitops armhf 1.0-6-1 [23.6 kB]
Get:171 http://172.17.0.1/private stretch-staging/main armhf r-bioc-genomicranges armhf 1.24.0-1 [1301 kB]
Get:172 http://172.17.0.1/private stretch-staging/main armhf r-bioc-rsamtools armhf 1.24.0-1 [3197 kB]
Get:173 http://172.17.0.1/private stretch-staging/main armhf r-bioc-summarizedexperiment all 1.2.0-1 [1292 kB]
Get:174 http://172.17.0.1/private stretch-staging/main armhf r-bioc-genomicalignments armhf 1.8.0-1 [1444 kB]
Get:175 http://172.17.0.1/private stretch-staging/main armhf r-cran-hwriter all 1.3.2-1 [137 kB]
Get:176 http://172.17.0.1/private stretch-staging/main armhf r-cran-lattice armhf 0.20-33-1 [713 kB]
Get:177 http://172.17.0.1/private stretch-staging/main armhf r-cran-rcolorbrewer all 1.1-2-1 [26.0 kB]
Get:178 http://172.17.0.1/private stretch-staging/main armhf r-cran-latticeextra armhf 0.6-28-1 [2059 kB]
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Processing triggers for libc-bin (2.22-7) ...
Processing triggers for systemd (229-5) ...
Setting up groff-base (1.22.3-7) ...
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Setting up bsdmainutils (9.0.10) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
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Setting up libpipeline1:armhf (1.4.1-2) ...
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Creating config file /etc/papersize with new version
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update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
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update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode
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Setting up libcairo2:armhf (1.14.6-1) ...
Setting up libnghttp2-14:armhf (1.10.0-1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-1) ...
Setting up libssh2-1:armhf (1.5.0-2.1) ...
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Setting up libdatrie1:armhf (0.2.10-2) ...
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update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
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Setting up libpaper-utils (1.1.24+nmu4) ...
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Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-2+b1) ...
Setting up libpng-dev:armhf (1.6.21-4) ...
Setting up libreadline6-dev:armhf (6.3-8+b3) ...
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Setting up libsm6:armhf (2:1.2.2-1+b1) ...
Setting up libtcl8.6:armhf (8.6.5+dfsg-2) ...
Setting up libtiff5:armhf (4.0.6-1) ...
Setting up libtk8.6:armhf (8.6.5-1) ...
Setting up libxt6:armhf (1:1.1.5-1) ...
Setting up zip (3.0-11) ...
Setting up unzip (6.0-20) ...
Setting up xdg-utils (1.1.1-1) ...
Setting up r-base-core (3.3.0-1) ...

Creating config file /etc/R/Renviron with new version
Setting up r-cran-littler (0.3.0-2) ...
Setting up littler (0.3.0-2) ...
Setting up r-base-dev (3.3.0-1) ...
Setting up r-bioc-biocgenerics (0.18.0-1) ...
Setting up r-bioc-biobase (2.32.0-1) ...
Setting up r-cran-checkmate (1.6.0-1) ...
Setting up r-cran-bbmisc (1.9-2) ...
Setting up r-cran-brew (1.0-6-1) ...
Setting up r-cran-digest (0.6.9-1) ...
Setting up r-cran-dbi (0.4-1) ...
Setting up r-cran-rsqlite (1.0.0-2) ...
Setting up r-cran-pkgkitten (0.1.3-1) ...
Setting up r-cran-rcpp (0.12.4-1) ...
Setting up r-cran-plyr (1.8.3-2) ...
Setting up r-cran-magrittr (1.5-3) ...
Setting up r-cran-stringi (1.0-1-1) ...
Setting up r-cran-stringr (1.0.0-1) ...
Setting up r-cran-base64enc (0.1-2-1) ...
Setting up r-cran-sendmailr (1.2-1-1) ...
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Setting up r-cran-batchjobs (1.6-1) ...
Setting up r-cran-codetools (0.2-14-1) ...
Setting up r-cran-iterators (1.0.8-1) ...
Setting up r-cran-foreach (1.4.3-1) ...
Setting up r-cran-lambda.r (1.1.7-3) ...
Setting up r-cran-futile.options (1.0.0-2) ...
Setting up r-cran-futile.logger (1.4.1-3) ...
Setting up r-cran-snow (1:0.4.1-1) ...
Setting up r-bioc-biocparallel (1.6.0-1) ...
Setting up r-bioc-s4vectors (0.10.0-1) ...
Setting up r-bioc-iranges (2.6.0-1) ...
Setting up r-bioc-xvector (0.12.0-1) ...
Setting up r-bioc-biostrings (2.40.0-1) ...
Setting up r-bioc-genomeinfodb (1.8.0-1) ...
Setting up r-cran-bitops (1.0-6-1) ...
Setting up r-bioc-genomicranges (1.24.0-1) ...
Setting up r-bioc-rsamtools (1.24.0-1) ...
Setting up r-bioc-summarizedexperiment (1.2.0-1) ...
Setting up r-bioc-genomicalignments (1.8.0-1) ...
Setting up r-cran-hwriter (1.3.2-1) ...
Setting up r-cran-lattice (0.20-33-1) ...
Setting up r-cran-rcolorbrewer (1.1-2-1) ...
Setting up r-cran-latticeextra (0.6-28-1) ...
Setting up dh-autoreconf (12) ...
Setting up debhelper (9.20160403) ...
Setting up sbuild-build-depends-r-bioc-shortread-dummy (0.invalid.0) ...
Setting up dh-strip-nondeterminism (0.016-1) ...
Processing triggers for libc-bin (2.22-7) ...
Processing triggers for systemd (229-5) ...
Processing triggers for ca-certificates (20160104) ...
Updating certificates in /etc/ssl/certs...
173 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.

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

Kernel: Linux 4.4.0-1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.26-8 dpkg-dev_1.18.4 g++-5_5.3.1-17 gcc-5_5.3.1-17 libc6-dev_2.22-7 libstdc++-5-dev_5.3.1-17 libstdc++6_6.1.1-1+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: adduser_3.114 apt_1.2.11 autoconf_2.69-10 automake_1:1.15-4 autopoint_0.19.7-2 autotools-dev_20160430.1 base-files_9.6+rpi1 base-passwd_3.5.39 bash_4.3-14 binutils_2.26-8 bsdmainutils_9.0.10 bsdutils_1:2.28-1 build-essential_11.7 bzip2_1.0.6-8 ca-certificates_20160104 cdbs_0.4.130 coreutils_8.25-2 cpio_2.11+dfsg-5 cpp_4:5.3.1-1+rpi1 cpp-5_5.3.1-17 dash_0.5.8-2.2 debconf_1.5.59 debfoster_2.7-2 debhelper_9.20160403 debianutils_4.7 dh-autoreconf_12 dh-strip-nondeterminism_0.016-1 diffutils_1:3.3-3 dmsetup_2:1.02.123-1 dpkg_1.18.4 dpkg-dev_1.18.4 e2fslibs_1.43~WIP.2016.03.15-2 e2fsprogs_1.43~WIP.2016.03.15-2 fakeroot_1.20.2-1 file_1:5.25-2 findutils_4.6.0+git+20160126-2 fontconfig_2.11.0-6.4 fontconfig-config_2.11.0-6.4 fonts-dejavu-core_2.35-1 g++_4:5.3.1-1+rpi1 g++-5_5.3.1-17 gcc_4:5.3.1-1+rpi1 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_5.3.1-17 gcc-5-base_5.3.1-17 gcc-6-base_6.1.1-1+rpi1 gettext_0.19.7-2 gettext-base_0.19.7-2 gfortran_4:5.3.1-1+rpi1 gfortran-5_5.3.1-17 gnupg_1.4.20-6 gpgv_1.4.20-6 grep_2.25-1 groff-base_1.22.3-7 gzip_1.6-5 hostname_3.17 init_1.31 init-system-helpers_1.31 initscripts_2.88dsf-59.3 insserv_1.14.0-5.3 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-8+rpi1 kmod_22-1.1 libacl1_2.2.52-3 libapparmor1_2.10-4 libapt-pkg5.0_1.2.11 libarchive-zip-perl_1.57-1 libasan2_5.3.1-17 libatomic1_6.1.1-1+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.4.5-1 libaudit1_1:2.4.5-1 libblas-common_3.6.0-2 libblas-dev_3.6.0-2 libblas3_3.6.0-2 libblkid1_2.28-1 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8 libbz2-dev_1.0.6-8 libc-bin_2.22-7 libc-dev-bin_2.22-7 libc6_2.22-7 libc6-dev_2.22-7 libcairo2_1.14.6-1 libcap2_1:2.24-12 libcap2-bin_1:2.24-12 libcc1-0_6.1.1-1+rpi1 libcomerr2_1.43~WIP.2016.03.15-2 libcroco3_0.6.11-1 libcryptsetup4_2:1.7.0-2 libcurl3_7.47.0-1 libdatrie1_0.2.10-2 libdb5.3_5.3.28-11 libdbus-1-3_1.10.8-1 libdebconfclient0_0.209 libdevmapper1.02.1_2:1.02.123-1 libdpkg-perl_1.18.4 libdrm2_2.4.67-1 libexpat1_2.1.1-1 libfakeroot_1.20.2-1 libfdisk1_2.28-1 libffi6_3.2.1-4 libfile-stripnondeterminism-perl_0.016-1 libfontconfig1_2.11.0-6.4 libfreetype6_2.6.3-3 libgc1c2_1:7.4.2-7.4 libgcc-5-dev_5.3.1-17 libgcc1_1:6.1.1-1+rpi1 libgcrypt20_1.7.0-2 libgdbm3_1.8.3-13.1 libgfortran-5-dev_5.3.1-17 libgfortran3_6.1.1-1+rpi1 libglib2.0-0_2.48.0-1 libgmp10_2:6.1.0+dfsg-2 libgnutls30_3.4.11-4 libgomp1_6.1.1-1+rpi1 libgpg-error0_1.22-1 libgraphite2-3_1.3.8-1 libgssapi-krb5-2_1.13.2+dfsg-5 libharfbuzz0b_1.0.1-1+b1 libhogweed4_3.2-1 libice6_2:1.0.9-1+b1 libicu55_55.1-7 libidn11_1.32-3 libisl15_0.16.1-1 libjbig0_2.1-3.1 libjpeg-dev_1:1.4.2-2 libjpeg62-turbo_1:1.4.2-2 libjpeg62-turbo-dev_1:1.4.2-2 libk5crypto3_1.13.2+dfsg-5 libkeyutils1_1.5.9-9 libklibc_2.0.4-8+rpi1 libkmod2_22-1.1 libkrb5-3_1.13.2+dfsg-5 libkrb5support0_1.13.2+dfsg-5 liblapack-dev_3.6.0-2 liblapack3_3.6.0-2 libldap-2.4-2_2.4.42+dfsg-2+rpi1+b2 liblz4-1_0.0~r131-2 liblzma-dev_5.1.1alpha+20120614-2.1 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.25-2 libmount1_2.28-1 libmpc3_1.0.3-1 libmpfr4_3.1.4-1 libncurses5_6.0+20160319-1 libncurses5-dev_6.0+20160319-1 libncursesw5_6.0+20160319-1 libnettle6_3.2-1 libnghttp2-14_1.10.0-1 libp11-kit0_0.23.2-3 libpam-modules_1.1.8-3.2 libpam-modules-bin_1.1.8-3.2 libpam-runtime_1.1.8-3.2 libpam0g_1.1.8-3.2 libpango-1.0-0_1.40.1-1 libpangocairo-1.0-0_1.40.1-1 libpangoft2-1.0-0_1.40.1-1 libpaper-utils_1.1.24+nmu4 libpaper1_1.1.24+nmu4 libpcre16-3_2:8.38-3.1 libpcre3_2:8.38-3.1 libpcre3-dev_2:8.38-3.1 libpcre32-3_2:8.38-3.1 libpcrecpp0v5_2:8.38-3.1 libperl5.22_5.22.2-1 libpipeline1_1.4.1-2 libpixman-1-0_0.33.6-1 libpng-dev_1.6.21-4 libpng12-0_1.2.54-6 libpng16-16_1.6.21-4 libprocps5_2:3.3.11-3 libreadline-dev_6.3-8+b3 libreadline6_6.3-8+b3 libreadline6-dev_6.3-8+b3 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.26.dfsg1-15 libsasl2-modules-db_2.1.26.dfsg1-15 libseccomp2_2.3.0-1 libselinux1_2.5-2 libsemanage-common_2.5-1 libsemanage1_2.5-1 libsepol1_2.5-1 libsigsegv2_2.10-5 libsm6_2:1.2.2-1+b1 libsmartcols1_2.28-1 libsqlite3-0_3.12.2-1 libss2_1.43~WIP.2016.03.15-2 libssh2-1_1.5.0-2.1 libssl1.0.2_1.0.2h-1 libstdc++-5-dev_5.3.1-17 libstdc++6_6.1.1-1+rpi1 libsystemd0_229-5 libtasn1-6_4.8-1 libtcl8.6_8.6.5+dfsg-2 libthai-data_0.1.24-2 libthai0_0.1.24-2 libtiff5_4.0.6-1 libtimedate-perl_2.3000-2 libtinfo-dev_6.0+20160319-1 libtinfo5_6.0+20160319-1 libtk8.6_8.6.5-1 libtool_2.4.6-0.1 libubsan0_6.1.1-1+rpi1 libudev1_229-5 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-28 libustr-1.0-1_1.0.4-5 libuuid1_2.28-1 libx11-6_2:1.6.3-1 libx11-data_2:1.6.3-1 libxau6_1:1.0.8-1 libxcb-render0_1.11.1-1 libxcb-shm0_1.11.1-1 libxcb1_1.11.1-1 libxdmcp6_1:1.1.2-1.1 libxext6_2:1.3.3-1 libxft2_2.3.2-1 libxml2_2.9.3+dfsg1-1 libxrender1_1:0.9.9-2 libxss1_1:1.2.2-1 libxt6_1:1.1.5-1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch littler_0.3.0-2 login_1:4.2-3.1 lsb-base_9.20160110+rpi1 m4_1.4.17-5 make_4.1-9 makedev_2.3.1-93 man-db_2.7.5-1 manpages_4.05-1 mawk_1.3.3-17 mount_2.28-1 multiarch-support_2.22-7 nano_2.5.3-3 ncurses-base_6.0+20160319-1 ncurses-bin_6.0+20160319-1 openssl_1.0.2h-1 passwd_1:4.2-3.1 patch_2.7.5-1 perl_5.22.2-1 perl-base_5.22.2-1 perl-modules-5.22_5.22.2-1 po-debconf_1.0.19 procps_2:3.3.11-3 r-base-core_3.3.0-1 r-base-dev_3.3.0-1 r-bioc-biobase_2.32.0-1 r-bioc-biocgenerics_0.18.0-1 r-bioc-biocparallel_1.6.0-1 r-bioc-biostrings_2.40.0-1 r-bioc-genomeinfodb_1.8.0-1 r-bioc-genomicalignments_1.8.0-1 r-bioc-genomicranges_1.24.0-1 r-bioc-iranges_2.6.0-1 r-bioc-rsamtools_1.24.0-1 r-bioc-s4vectors_0.10.0-1 r-bioc-summarizedexperiment_1.2.0-1 r-bioc-xvector_0.12.0-1 r-cran-base64enc_0.1-2-1 r-cran-batchjobs_1.6-1 r-cran-bbmisc_1.9-2 r-cran-bitops_1.0-6-1 r-cran-brew_1.0-6-1 r-cran-checkmate_1.6.0-1 r-cran-codetools_0.2-14-1 r-cran-dbi_0.4-1 r-cran-digest_0.6.9-1 r-cran-fail_1.3-1 r-cran-foreach_1.4.3-1 r-cran-futile.logger_1.4.1-3 r-cran-futile.options_1.0.0-2 r-cran-hwriter_1.3.2-1 r-cran-iterators_1.0.8-1 r-cran-lambda.r_1.1.7-3 r-cran-lattice_0.20-33-1 r-cran-latticeextra_0.6-28-1 r-cran-littler_0.3.0-2 r-cran-magrittr_1.5-3 r-cran-pkgkitten_0.1.3-1 r-cran-plyr_1.8.3-2 r-cran-rcolorbrewer_1.1-2-1 r-cran-rcpp_0.12.4-1 r-cran-rsqlite_1.0.0-2 r-cran-sendmailr_1.2-1-1 r-cran-snow_1:0.4.1-1 r-cran-stringi_1.0-1-1 r-cran-stringr_1.0.0-1 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-shortread-dummy_0.invalid.0 sed_4.2.2-7.1 sensible-utils_0.0.9 startpar_0.59-3 systemd_229-5 systemd-sysv_229-5 sysv-rc_2.88dsf-59.3 sysvinit-utils_2.88dsf-59.3 tar_1.28-2.1 tzdata_2016d-2 ucf_3.0036 udev_229-5 unzip_6.0-20 util-linux_2.28-1 x11-common_1:7.7+15 xdg-utils_1.1.1-1 xz-utils_5.1.1alpha+20120614-2.1 zip_3.0-11 zlib1g_1:1.2.8.dfsg-2+b1 zlib1g-dev_1:1.2.8.dfsg-2+b1

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


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

gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Mon May  9 09:03:09 2016 UTC using RSA key ID D1C646D1
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./r-bioc-shortread_1.30.0-1.dsc
dpkg-source: info: extracting r-bioc-shortread in r-bioc-shortread-1.30.0
dpkg-source: info: unpacking r-bioc-shortread_1.30.0.orig.tar.gz
dpkg-source: info: unpacking r-bioc-shortread_1.30.0-1.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=root
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=stretch-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=stretch-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=stretch-staging-armhf-sbuild-0f1a3def-e8af-4bbf-9423-7a511e2970b5
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd

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

dpkg-buildpackage: source package r-bioc-shortread
dpkg-buildpackage: source version 1.30.0-1
dpkg-buildpackage: source distribution unstable
 dpkg-source --before-build r-bioc-shortread-1.30.0
dpkg-buildpackage: host architecture armhf
 fakeroot debian/rules clean
test -x debian/rules
dh_clean 
if test -d src; then				\
		find src -regex ".*\.o" |               \
                        xargs --no-run-if-empty -r rm;          \
	fi
rm -f config.log config.status
 debian/rules build-arch
test -x debian/rules
mkdir -p "."
 fakeroot debian/rules binary-arch
test -x debian/rules
dh_testroot
dh_prep 
dh_installdirs -A 
mkdir -p "."
dh_installdirs		usr/lib/R/site-library
echo "R:Depends=r-base-core (>= 3.3.0-1), r-api-3" >> debian/r-bioc-shortread.substvars
if test -f /usr/bin/xvfb-run; then 			\
		 xvfb-run -a 			\
			R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/lib/R/site-library --clean     \
				 .   	\
				"--built-timestamp=\"Mon, 09 May 2016 10:58:41 +0200\""   	        \
				;                               \
	else							\
		 R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/lib/R/site-library 	\
				--clean  .  \
				"--built-timestamp=\"Mon, 09 May 2016 10:58:41 +0200\""   	        \
				;                               \
	fi
* 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 -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 -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 -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 -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 -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 -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 -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 -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 -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 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c readBfaToc.cc -o readBfaToc.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 -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 -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 -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 -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 -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
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ShortRead)
rm -vf /<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/lib/R/site-library/R.css 			\
		/<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/lib/R/site-library/ShortRead/COPYING 	\
		/<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/lib/R/site-library/ShortRead/LICENSE.txt	\
		/<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/lib/R/site-library/ShortRead/LICENSE
if test -f debian/overrides; then 		\
		install -d /<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/share/lintian/overrides ; 		\
		install -m 0644 debian/overrides 	\
			/<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/share/lintian/overrides/r-bioc-shortread; 	\
	fi
Adding cdbs dependencies to debian/r-bioc-shortread.substvars
dh_installdirs -pr-bioc-shortread 
dh_installdocs -pr-bioc-shortread ./NEWS 
dh_installexamples -pr-bioc-shortread 
dh_installman -pr-bioc-shortread  
dh_installinfo -pr-bioc-shortread  
dh_installmenu -pr-bioc-shortread 
dh_installcron -pr-bioc-shortread 
dh_installinit -pr-bioc-shortread  
dh_installdebconf -pr-bioc-shortread 
dh_installemacsen -pr-bioc-shortread   
dh_installcatalogs -pr-bioc-shortread 
dh_installpam -pr-bioc-shortread 
dh_installlogrotate -pr-bioc-shortread 
dh_installlogcheck -pr-bioc-shortread 
dh_installchangelogs -pr-bioc-shortread  
dh_installudev -pr-bioc-shortread 
dh_lintian -pr-bioc-shortread 
dh_bugfiles -pr-bioc-shortread 
dh_install -pr-bioc-shortread  
dh_link -pr-bioc-shortread  
dh_installmime -pr-bioc-shortread 
dh_installgsettings -pr-bioc-shortread 
dh_strip -pr-bioc-shortread  
dh_compress -pr-bioc-shortread  
dh_fixperms -pr-bioc-shortread  
dh_makeshlibs -pr-bioc-shortread  
dh_installdeb -pr-bioc-shortread 
dh_perl -pr-bioc-shortread 
dh_shlibdeps -pr-bioc-shortread    
dh_gencontrol -pr-bioc-shortread  
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dh_md5sums -pr-bioc-shortread 
dh_builddeb -pr-bioc-shortread 
dpkg-deb: building package 'r-bioc-shortread-dbgsym' in '../r-bioc-shortread-dbgsym_1.30.0-1_armhf.deb'.
dpkg-deb: building package 'r-bioc-shortread' in '../r-bioc-shortread_1.30.0-1_armhf.deb'.
 dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../r-bioc-shortread_1.30.0-1_armhf.changes
dpkg-genchanges: warning: package r-bioc-shortread-dbgsym listed in files list but not in control info
dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included)
 dpkg-source --after-build r-bioc-shortread-1.30.0
dpkg-buildpackage: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 20160515-0548

Finished
--------

I: Built successfully

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


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


r-bioc-shortread_1.30.0-1_armhf.changes:
----------------------------------------

Format: 1.8
Date: Mon, 09 May 2016 10:58:41 +0200
Source: r-bioc-shortread
Binary: r-bioc-shortread
Architecture: armhf
Version: 1.30.0-1
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <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 (1.30.0-1) unstable; urgency=medium
 .
   * New upstream version
   * cme fix dpkg-control
Checksums-Sha1:
 ba448a7cc77fc7a14354f36d3dce26254fbca9da 128106 r-bioc-shortread-dbgsym_1.30.0-1_armhf.deb
 3e7c7d444e25a22c48bb698db3d01a29250c88e6 4170612 r-bioc-shortread_1.30.0-1_armhf.deb
Checksums-Sha256:
 04d5069bdeb450ea58b58bcf5420c145edb710a7926c8c4f7fd07e9f5deee47c 128106 r-bioc-shortread-dbgsym_1.30.0-1_armhf.deb
 61abb9503a41e46780e35d267410b89a4e37ed735bf897af8d445eb5c7e0d325 4170612 r-bioc-shortread_1.30.0-1_armhf.deb
Files:
 513748360fd5f79aec762feb20ee9446 128106 debug extra r-bioc-shortread-dbgsym_1.30.0-1_armhf.deb
 ac9b0357df992ee74acd2ef62f2973ac 4170612 gnu-r optional r-bioc-shortread_1.30.0-1_armhf.deb

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


r-bioc-shortread-dbgsym_1.30.0-1_armhf.deb
------------------------------------------

 new debian package, version 2.0.
 size 128106 bytes: control archive=517 bytes.
     485 bytes,    13 lines      control              
     106 bytes,     1 lines      md5sums              
 Package: r-bioc-shortread-dbgsym
 Source: r-bioc-shortread
 Version: 1.30.0-1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 162
 Depends: r-bioc-shortread (= 1.30.0-1)
 Section: debug
 Priority: extra
 Homepage: http://www.bioconductor.org/packages/release/bioc/html/ShortRead.html
 Description: Debug symbols for r-bioc-shortread
 Auto-Built-Package: debug-symbols
 Build-Ids: e4e6b461ac31b574ce8ec180b8083939b7d91158

drwxr-xr-x root/root         0 2016-05-15 05:47 ./
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/lib/
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/lib/debug/
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/lib/debug/.build-id/e4/
-rw-r--r-- root/root    155220 2016-05-15 05:47 ./usr/lib/debug/.build-id/e4/e6b461ac31b574ce8ec180b8083939b7d91158.debug
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/share/
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/share/doc/
lrwxrwxrwx root/root         0 2016-05-15 05:47 ./usr/share/doc/r-bioc-shortread-dbgsym -> r-bioc-shortread


r-bioc-shortread_1.30.0-1_armhf.deb
-----------------------------------

 new debian package, version 2.0.
 size 4170612 bytes: control archive=4299 bytes.
     974 bytes,    16 lines      control              
   10878 bytes,   114 lines      md5sums              
 Package: r-bioc-shortread
 Version: 1.30.0-1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 5918
 Depends: r-base-core (>= 3.3.0-1), r-api-3, libc6 (>= 2.7), libgcc1 (>= 1:3.5), libgomp1 (>= 4.9), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), r-cran-latticeextra, r-bioc-biobase (>= 2.26.0), r-bioc-genomicalignments (>= 1.8.0), r-cran-hwriter
 Section: gnu-r
 Priority: optional
 Homepage: http://www.bioconductor.org/packages/release/bioc/html/ShortRead.html
 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.

drwxr-xr-x root/root         0 2016-05-15 05:47 ./
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/
drwxr-xr-x root/root         0 2016-05-15 05:44 ./usr/lib/
drwxr-xr-x root/root         0 2016-05-15 05:44 ./usr/lib/R/
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/lib/R/site-library/
drwxr-xr-x root/root         0 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/
-rw-r--r-- root/root      1158 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/CITATION
-rw-r--r-- root/root      1320 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/DESCRIPTION
-rw-r--r-- root/root      5917 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/INDEX
drwxr-xr-x root/root         0 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/Meta/
-rw-r--r-- root/root      5586 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/Meta/Rd.rds
-rw-r--r-- root/root      5744 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/Meta/hsearch.rds
-rw-r--r-- root/root      4149 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/Meta/links.rds
-rw-r--r-- root/root       847 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/Meta/nsInfo.rds
-rw-r--r-- root/root      1374 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/Meta/package.rds
-rw-r--r-- root/root       260 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/Meta/vignette.rds
-rw-r--r-- root/root      1147 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/NAMESPACE
-rw-r--r-- root/root     12051 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/NEWS
drwxr-xr-x root/root         0 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/R/
-rw-r--r-- root/root      1056 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/R/ShortRead
-rw-r--r-- root/root    797850 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/R/ShortRead.rdb
-rw-r--r-- root/root     11890 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/R/ShortRead.rdx
drwxr-xr-x root/root         0 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/doc/
-rw-r--r-- root/root      5961 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/doc/Overview.R
-rw-r--r-- root/root     15627 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/doc/Overview.Rnw
-rw-r--r-- root/root    149597 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/doc/Overview.pdf
-rw-r--r-- root/root      1355 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/doc/index.html
drwxr-xr-x root/root         0 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/
drwxr-xr-x root/root         0 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/
drwxr-xr-x root/root         0 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/
drwxr-xr-x root/root         0 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/
drwxr-xr-x root/root         0 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/
-rw-r--r-- root/root     31740 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_1_sequence.txt
-rw-r--r-- root/root    121368 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_2_export.txt
-rw-r--r-- root/root     90912 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_5_0001_realign.txt
-rw-r--r-- root/root    184320 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/s_1_0001_prb.txt
-rw-r--r-- root/root     12452 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/s_1_0001_seq.txt
-rw-r--r-- root/root     21534 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/s_1_1_0001_qseq.txt
-rw-r--r-- root/root    261216 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/s_1_0001_int.txt
-rw-r--r-- root/root    261028 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/s_1_0001_nse.txt
drwxr-xr-x root/root         0 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/E-MTAB-1147/
-rw-r--r-- root/root   1408765 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/E-MTAB-1147/ERR127302_1_subset.fastq.gz
-rw-r--r-- root/root   1402866 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/E-MTAB-1147/ERR127302_2_subset.fastq.gz
drwxr-xr-x root/root         0 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/bowtie/
-rw-r--r-- root/root    117004 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/bowtie/s_1_aligned_bowtie.txt
drwxr-xr-x root/root         0 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/maq/
-rw-r--r-- root/root    131501 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/maq/out.aln.1.txt
-rw-r--r-- root/root    133413 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/extdata/maq/out.aln.2.txt
drwxr-xr-x root/root         0 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/help/
-rw-r--r-- root/root     20737 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/help/AnIndex
-rw-r--r-- root/root    302227 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/help/ShortRead.rdb
-rw-r--r-- root/root      1522 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/help/ShortRead.rdx
-rw-r--r-- root/root      4219 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/help/aliases.rds
-rw-r--r-- root/root       643 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/help/paths.rds
drwxr-xr-x root/root         0 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/html/
-rw-r--r-- root/root     65965 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/html/00Index.html
-rw-r--r-- root/root      1335 2016-05-15 05:46 ./usr/lib/R/site-library/ShortRead/html/R.css
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/lib/R/site-library/ShortRead/libs/
-rw-r--r-- root/root    109008 2016-05-15 05:47 ./usr/lib/R/site-library/ShortRead/libs/ShortRead.so
drwxr-xr-x root/root         0 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/script/
-rw-r--r-- root/root       308 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/script/qa-test.R
drwxr-xr-x root/root         0 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/
-rw-r--r-- root/root       671 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/0000-Header.html
-rw-r--r-- root/root       578 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/1000-Overview.html
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-rw-r--r-- root/root      1998 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/3000-ReadDistribution.html
-rw-r--r-- root/root      1209 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/4000-CycleSpecific.html
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-rw-r--r-- root/root       249 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/8000-DepthOfCoverage.html
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-rw-r--r-- root/root       108 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/9999-Footer.html
-rw-r--r-- root/root       575 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/QA.css
-rw-r--r-- root/root       402 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/QAAdapterContamination.html
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-rw-r--r-- root/root       216 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/QAQualityUse.html
-rw-r--r-- root/root       279 2016-05-15 05:45 ./usr/lib/R/site-library/ShortRead/template/QAReadQuality.html
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drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/share/
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/share/doc/
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/share/doc/r-bioc-shortread/
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-rw-r--r-- root/root      6334 2014-10-21 20:24 ./usr/share/doc/r-bioc-shortread/copyright
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/share/lintian/
drwxr-xr-x root/root         0 2016-05-15 05:47 ./usr/share/lintian/overrides/
-rw-r--r-- root/root       317 2015-11-06 10:46 ./usr/share/lintian/overrides/r-bioc-shortread


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


+------------------------------------------------------------------------------+
| Cleanup                                                                      |
+------------------------------------------------------------------------------+

Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use

+------------------------------------------------------------------------------+
| Summary                                                                      |
+------------------------------------------------------------------------------+

Build Architecture: armhf
Build-Space: 18924
Build-Time: 218
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 794
Job: r-bioc-shortread_1.30.0-1
Machine Architecture: armhf
Package: r-bioc-shortread
Package-Time: 1060
Source-Version: 1.30.0-1
Space: 18924
Status: successful
Version: 1.30.0-1
--------------------------------------------------------------------------------
Finished at 20160515-0548
Build needed 00:17:40, 18924k disc space

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