r-bioc-shortread →
1.28.0-1 →
armhf → 2016-03-03 10:38:51
sbuild (Debian sbuild) 0.66.0 (04 Oct 2015) on bm-wb-04
+==============================================================================+
| r-bioc-shortread 1.28.0-1 (armhf) 03 Mar 2016 10:18 |
+==============================================================================+
Package: r-bioc-shortread
Version: 1.28.0-1
Source Version: 1.28.0-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/r-bioc-shortread-N0WxO0/r-bioc-shortread-1.28.0' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-shortread-N0WxO0' with '<<BUILDDIR>>'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-b83ec419-73e0-4cee-abc5-ccd4f32dc95b' 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 [8775 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [10.9 MB]
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+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
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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 5152 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main r-bioc-shortread 1.28.0-1 (dsc) [2220 B]
Get:2 http://172.17.0.1/private stretch-staging/main r-bioc-shortread 1.28.0-1 (tar) [5145 kB]
Get:3 http://172.17.0.1/private stretch-staging/main r-bioc-shortread 1.28.0-1 (diff) [5112 B]
Fetched 5152 kB in 0s (7693 kB/s)
Download complete and in download only mode
Check architectures
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Check dependencies
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Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-Z_mZgy/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-Z_mZgy/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-Z_mZgy/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-Z_mZgy/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-Z_mZgy/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-Z_mZgy/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-Z_mZgy/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-Z_mZgy/apt_archive ./ Sources [214 B]
Get:5 file:/<<BUILDDIR>>/resolver-Z_mZgy/apt_archive ./ Packages [526 B]
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+------------------------------------------------------------------------------+
| Install core build dependencies (apt-based resolver) |
+------------------------------------------------------------------------------+
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 44 not upgraded.
Need to get 0 B/764 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-Z_mZgy/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [764 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 ... 13601 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) ...
W: No sandbox user '_apt' on the system, can not drop privileges
Merged Build-Depends: debhelper (>= 9), cdbs, r-base-dev, r-cran-latticeextra, r-bioc-biobase (>= 2.26.0), r-bioc-genomicalignments (>= 1.6.0), r-cran-hwriter
Filtered Build-Depends: debhelper (>= 9), cdbs, r-base-dev, r-cran-latticeextra, r-bioc-biobase (>= 2.26.0), r-bioc-genomicalignments (>= 1.6.0), r-cran-hwriter
dpkg-deb: building package 'sbuild-build-depends-r-bioc-shortread-dummy' in '/<<BUILDDIR>>/resolver-PTVny7/apt_archive/sbuild-build-depends-r-bioc-shortread-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-PTVny7/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-PTVny7/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-PTVny7/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-PTVny7/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-PTVny7/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-PTVny7/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-PTVny7/apt_archive ./ Sources [277 B]
Get:5 file:/<<BUILDDIR>>/resolver-PTVny7/apt_archive ./ Packages [594 B]
Reading package lists...
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+------------------------------------------------------------------------------+
| Install r-bioc-shortread build dependencies (apt-based resolver) |
+------------------------------------------------------------------------------+
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
autotools-dev bsdmainutils ca-certificates cdbs debhelper
dh-strip-nondeterminism file fontconfig fontconfig-config fonts-dejavu-core
gettext gettext-base gfortran gfortran-5 groff-base intltool-debian
libarchive-zip-perl libblas-common libblas-dev libblas3 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 libncurses5-dev libncursesw5
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 libpng12-0 libpng12-dev
libreadline-dev libreadline6-dev librtmp1 libsasl2-2 libsasl2-modules-db
libsm6 libsqlite3-0 libssh2-1 libssl1.0.2 libtasn1-6 libtcl8.6 libthai-data
libthai0 libtiff5 libtinfo-dev libtinfo5 libtk8.6 libunistring0 libx11-6
libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6
libxft2 libxml2 libxrender1 libxss1 libxt6 littler 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:
wamerican | wordlist whois vacation devscripts dh-make gettext-doc autopoint
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 tcl8.6 tk8.6 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 libgpm2 libsasl2-modules xml-core
libmail-sendmail-perl r-recommended r-doc-html r-cran-doparallel
r-bioc-shortread 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:
autotools-dev bsdmainutils ca-certificates cdbs debhelper
dh-strip-nondeterminism file fontconfig fontconfig-config fonts-dejavu-core
gettext gettext-base gfortran gfortran-5 groff-base intltool-debian
libarchive-zip-perl libblas-common libblas-dev libblas3 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 libpng12-dev libreadline-dev libreadline6-dev
librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libsqlite3-0 libssh2-1
libssl1.0.2 libtasn1-6 libtcl8.6 libthai-data libthai0 libtiff5 libtinfo-dev
libtk8.6 libunistring0 libx11-6 libx11-data libxau6 libxcb-render0
libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1
libxt6 littler 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:
libncurses5 libncursesw5 libpng12-0 libtinfo5
4 upgraded, 154 newly installed, 0 to remove and 40 not upgraded.
Need to get 136 MB/136 MB of archives.
After this operation, 323 MB of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-PTVny7/apt_archive ./ sbuild-build-depends-r-bioc-shortread-dummy 0.invalid.0 [832 B]
Get:2 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-7 [1083 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf libtinfo5 armhf 6.0+20160213-1 [281 kB]
Get:4 http://172.17.0.1/private stretch-staging/main armhf libncurses5 armhf 6.0+20160213-1 [74.8 kB]
Get:5 http://172.17.0.1/private stretch-staging/main armhf libncursesw5 armhf 6.0+20160213-1 [93.3 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.6 [177 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf libexpat1 armhf 2.1.0-7 [59.8 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf libpng12-0 armhf 1.2.54-3 [160 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf libfreetype6 armhf 2.6.1-0.1 [411 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf ucf all 3.0035 [68.5 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 2.11.0-6.3 [273 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf libfontconfig1 armhf 2.11.0-6.3 [311 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf fontconfig armhf 2.11.0-6.3 [402 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 2:8.38-1 [148 kB]
Get:20 http://172.17.0.1/private stretch-staging/main armhf libssh2-1 armhf 1.5.0-2 [122 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:23 http://172.17.0.1/private stretch-staging/main armhf libxdmcp6 armhf 1:1.1.2-1.1 [24.9 kB]
Get:24 http://172.17.0.1/private stretch-staging/main armhf libxcb1 armhf 1.11.1-1 [40.9 kB]
Get:25 http://172.17.0.1/private stretch-staging/main armhf libx11-data all 2:1.6.3-1 [128 kB]
Get:26 http://172.17.0.1/private stretch-staging/main armhf libx11-6 armhf 2:1.6.3-1 [678 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf libxext6 armhf 2:1.3.3-1 [48.1 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf libxrender1 armhf 1:0.9.9-2 [28.9 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf libxft2 armhf 2.3.2-1 [48.3 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf x11-common all 1:7.7+13 [251 kB]
Get:31 http://172.17.0.1/private stretch-staging/main armhf libxss1 armhf 1:1.2.2-1 [16.8 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf libssl1.0.2 armhf 1.0.2f-2 [883 kB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.25-2 [250 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.25-2 [61.2 kB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf gettext-base armhf 0.19.7-2 [111 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf libnettle6 armhf 3.2-1 [202 kB]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libhogweed4 armhf 3.2-1 [126 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf libidn11 armhf 1.32-3 [110 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf libffi6 armhf 3.2.1-4 [18.5 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf libp11-kit0 armhf 0.23.2-3 [93.3 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf libtasn1-6 armhf 4.7-3 [44.4 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf libgnutls30 armhf 3.4.9-2 [711 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libkeyutils1 armhf 1.5.9-8 [11.5 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf libkrb5support0 armhf 1.13.2+dfsg-5 [56.6 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf libk5crypto3 armhf 1.13.2+dfsg-5 [110 kB]
Get:46 http://172.17.0.1/private stretch-staging/main armhf libkrb5-3 armhf 1.13.2+dfsg-5 [259 kB]
Get:47 http://172.17.0.1/private stretch-staging/main armhf libgssapi-krb5-2 armhf 1.13.2+dfsg-5 [130 kB]
Get:48 http://172.17.0.1/private stretch-staging/main armhf libsasl2-modules-db armhf 2.1.26.dfsg1-14+b1 [65.8 kB]
Get:49 http://172.17.0.1/private stretch-staging/main armhf libsasl2-2 armhf 2.1.26.dfsg1-14+b1 [97.1 kB]
Get:50 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:51 http://172.17.0.1/private stretch-staging/main armhf libsqlite3-0 armhf 3.10.2-1 [408 kB]
Get:52 http://172.17.0.1/private stretch-staging/main armhf libicu55 armhf 55.1-7 [7380 kB]
Get:53 http://172.17.0.1/private stretch-staging/main armhf libxml2 armhf 2.9.3+dfsg1-1 [800 kB]
Get:54 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20150820.1 [71.7 kB]
Get:55 http://172.17.0.1/private stretch-staging/main armhf openssl armhf 1.0.2f-2 [663 kB]
Get:56 http://172.17.0.1/private stretch-staging/main armhf ca-certificates all 20160104 [200 kB]
Get:57 http://172.17.0.1/private stretch-staging/main armhf cdbs all 0.4.130 [76.4 kB]
Get:58 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.46.2-3 [2482 kB]
Get:59 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-1 [131 kB]
Get:60 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.7-2 [1400 kB]
Get:61 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:62 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.19 [249 kB]
Get:63 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.56-2 [94.9 kB]
Get:64 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.015-1 [11.0 kB]
Get:65 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.015-1 [6810 B]
Get:66 http://172.17.0.1/private stretch-staging/main armhf debhelper all 9.20160115 [827 kB]
Get:67 http://172.17.0.1/private stretch-staging/main armhf libgfortran3 armhf 5.3.1-8+rpi1 [153 kB]
Get:68 http://172.17.0.1/private stretch-staging/main armhf libgfortran-5-dev armhf 5.3.1-8+rpi1 [183 kB]
Get:69 http://172.17.0.1/private stretch-staging/main armhf gfortran-5 armhf 5.3.1-8+rpi1 [23.7 MB]
Get:70 http://172.17.0.1/private stretch-staging/main armhf gfortran armhf 4:5.3.1-1+rpi1 [1362 B]
Get:71 http://172.17.0.1/private stretch-staging/main armhf libblas-common armhf 3.6.0-2 [13.5 kB]
Get:72 http://172.17.0.1/private stretch-staging/main armhf libblas3 armhf 3.6.0-2 [110 kB]
Get:73 http://172.17.0.1/private stretch-staging/main armhf libblas-dev armhf 3.6.0-2 [116 kB]
Get:74 http://172.17.0.1/private stretch-staging/main armhf libbz2-dev armhf 1.0.6-8 [27.8 kB]
Get:75 http://172.17.0.1/private stretch-staging/main armhf libpixman-1-0 armhf 0.33.6-1 [454 kB]
Get:76 http://172.17.0.1/private stretch-staging/main armhf libxcb-render0 armhf 1.11.1-1 [17.0 kB]
Get:77 http://172.17.0.1/private stretch-staging/main armhf libxcb-shm0 armhf 1.11.1-1 [11.5 kB]
Get:78 http://172.17.0.1/private stretch-staging/main armhf libcairo2 armhf 1.14.6-1 [688 kB]
Get:79 http://172.17.0.1/private stretch-staging/main armhf libnghttp2-14 armhf 1.7.1-2 [63.2 kB]
Get:80 http://172.17.0.1/private stretch-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d-1+b1 [54.4 kB]
Get:81 http://172.17.0.1/private stretch-staging/main armhf libcurl3 armhf 7.47.0-1 [247 kB]
Get:82 http://172.17.0.1/private stretch-staging/main armhf libdatrie1 armhf 0.2.10-2 [32.5 kB]
Get:83 http://172.17.0.1/private stretch-staging/main armhf libgraphite2-3 armhf 1.3.5-1 [61.5 kB]
Get:84 http://172.17.0.1/private stretch-staging/main armhf libharfbuzz0b armhf 1.0.1-1+b1 [501 kB]
Get:85 http://172.17.0.1/private stretch-staging/main armhf libice6 armhf 2:1.0.9-1+b1 [51.9 kB]
Get:86 http://172.17.0.1/private stretch-staging/main armhf libjpeg62-turbo armhf 1:1.4.2-2 [104 kB]
Get:87 http://172.17.0.1/private stretch-staging/main armhf libjpeg62-turbo-dev armhf 1:1.4.2-2 [413 kB]
Get:88 http://172.17.0.1/private stretch-staging/main armhf libjpeg-dev all 1:1.4.2-2 [51.7 kB]
Get:89 http://172.17.0.1/private stretch-staging/main armhf liblapack3 armhf 3.6.0-2 [1382 kB]
Get:90 http://172.17.0.1/private stretch-staging/main armhf liblapack-dev armhf 3.6.0-2 [1355 kB]
Get:91 http://172.17.0.1/private stretch-staging/main armhf liblzma-dev armhf 5.1.1alpha+20120614-2.1 [248 kB]
Get:92 http://172.17.0.1/private stretch-staging/main armhf libtinfo-dev armhf 6.0+20160213-1 [66.0 kB]
Get:93 http://172.17.0.1/private stretch-staging/main armhf libncurses5-dev armhf 6.0+20160213-1 [154 kB]
Get:94 http://172.17.0.1/private stretch-staging/main armhf libthai-data all 0.1.24-2 [163 kB]
Get:95 http://172.17.0.1/private stretch-staging/main armhf libthai0 armhf 0.1.24-2 [46.6 kB]
Get:96 http://172.17.0.1/private stretch-staging/main armhf libpango-1.0-0 armhf 1.38.1-1 [292 kB]
Get:97 http://172.17.0.1/private stretch-staging/main armhf libpangoft2-1.0-0 armhf 1.38.1-1 [229 kB]
Get:98 http://172.17.0.1/private stretch-staging/main armhf libpangocairo-1.0-0 armhf 1.38.1-1 [218 kB]
Get:99 http://172.17.0.1/private stretch-staging/main armhf libpaper-utils armhf 1.1.24+nmu4 [17.2 kB]
Get:100 http://172.17.0.1/private stretch-staging/main armhf libpcre16-3 armhf 2:8.38-1 [229 kB]
Get:101 http://172.17.0.1/private stretch-staging/main armhf libpcre32-3 armhf 2:8.38-1 [222 kB]
Get:102 http://172.17.0.1/private stretch-staging/main armhf libpcre3-dev armhf 2:8.38-1 [556 kB]
Get:103 http://172.17.0.1/private stretch-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
Get:104 http://172.17.0.1/private stretch-staging/main armhf libpng12-dev armhf 1.2.54-3 [233 kB]
Get:105 http://172.17.0.1/private stretch-staging/main armhf libreadline6-dev armhf 6.3-8+b3 [105 kB]
Get:106 http://172.17.0.1/private stretch-staging/main armhf libreadline-dev armhf 6.3-8+b3 [958 B]
Get:107 http://172.17.0.1/private stretch-staging/main armhf libsm6 armhf 2:1.2.2-1+b1 [31.2 kB]
Get:108 http://172.17.0.1/private stretch-staging/main armhf libtcl8.6 armhf 8.6.4+dfsg-3 [855 kB]
Get:109 http://172.17.0.1/private stretch-staging/main armhf libtiff5 armhf 4.0.6-1 [201 kB]
Get:110 http://172.17.0.1/private stretch-staging/main armhf libtk8.6 armhf 8.6.4+dfsg-3 [664 kB]
Get:111 http://172.17.0.1/private stretch-staging/main armhf libxt6 armhf 1:1.1.5-1 [155 kB]
Get:112 http://172.17.0.1/private stretch-staging/main armhf zip armhf 3.0-11 [212 kB]
Get:113 http://172.17.0.1/private stretch-staging/main armhf unzip armhf 6.0-20 [142 kB]
Get:114 http://172.17.0.1/private stretch-staging/main armhf xdg-utils all 1.1.1-1 [71.1 kB]
Get:115 http://172.17.0.1/private stretch-staging/main armhf r-base-core armhf 3.2.3-6 [20.2 MB]
Get:116 http://172.17.0.1/private stretch-staging/main armhf r-cran-littler armhf 0.3.0-2 [64.7 kB]
Get:117 http://172.17.0.1/private stretch-staging/main armhf littler all 0.3.0-2 [11.0 kB]
Get:118 http://172.17.0.1/private stretch-staging/main armhf r-base-dev all 3.2.3-6 [4292 B]
Get:119 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biocgenerics all 0.16.0-1 [474 kB]
Get:120 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biobase armhf 2.30.0-1 [1999 kB]
Get:121 http://172.17.0.1/private stretch-staging/main armhf r-cran-checkmate armhf 1.6.0-1 [268 kB]
Get:122 http://172.17.0.1/private stretch-staging/main armhf r-cran-bbmisc armhf 1.9-1 [279 kB]
Get:123 http://172.17.0.1/private stretch-staging/main armhf r-cran-brew armhf 1.0-6-1 [61.3 kB]
Get:124 http://172.17.0.1/private stretch-staging/main armhf r-cran-digest armhf 0.6.9-1 [103 kB]
Get:125 http://172.17.0.1/private stretch-staging/main armhf r-cran-dbi armhf 0.3.1-1 [156 kB]
Get:126 http://172.17.0.1/private stretch-staging/main armhf r-cran-rsqlite armhf 1.0.0-2 [302 kB]
Get:127 http://172.17.0.1/private stretch-staging/main armhf r-cran-pkgkitten all 0.1.3-1 [18.3 kB]
Get:128 http://172.17.0.1/private stretch-staging/main armhf r-cran-rcpp armhf 0.12.3-1 [2123 kB]
Get:129 http://172.17.0.1/private stretch-staging/main armhf r-cran-plyr armhf 1.8.3-1 [728 kB]
Get:130 http://172.17.0.1/private stretch-staging/main armhf r-cran-magrittr armhf 1.5-1 [147 kB]
Get:131 http://172.17.0.1/private stretch-staging/main armhf r-cran-stringi armhf 1.0-1-1 [623 kB]
Get:132 http://172.17.0.1/private stretch-staging/main armhf r-cran-stringr all 1.0.0-1 [76.6 kB]
Get:133 http://172.17.0.1/private stretch-staging/main armhf r-cran-base64enc armhf 0.1-2-1 [19.6 kB]
Get:134 http://172.17.0.1/private stretch-staging/main armhf r-cran-sendmailr armhf 1.2-1-1 [29.0 kB]
Get:135 http://172.17.0.1/private stretch-staging/main armhf r-cran-fail armhf 1.3-1 [43.2 kB]
Get:136 http://172.17.0.1/private stretch-staging/main armhf r-cran-batchjobs armhf 1.6-1 [422 kB]
Get:137 http://172.17.0.1/private stretch-staging/main armhf r-cran-codetools all 0.2-14-1 [46.5 kB]
Get:138 http://172.17.0.1/private stretch-staging/main armhf r-cran-iterators all 1.0.8-1 [306 kB]
Get:139 http://172.17.0.1/private stretch-staging/main armhf r-cran-foreach all 1.4.3-1 [371 kB]
Get:140 http://172.17.0.1/private stretch-staging/main armhf r-cran-lambda.r all 1.1.7-2 [66.3 kB]
Get:141 http://172.17.0.1/private stretch-staging/main armhf r-cran-futile.options all 1.0.0-2 [15.4 kB]
Get:142 http://172.17.0.1/private stretch-staging/main armhf r-cran-futile.logger all 1.4.1-1 [84.4 kB]
Get:143 http://172.17.0.1/private stretch-staging/main armhf r-cran-snow all 1:0.4.1-1 [64.9 kB]
Get:144 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biocparallel all 1.4.0-1 [627 kB]
Get:145 http://172.17.0.1/private stretch-staging/main armhf r-bioc-s4vectors armhf 0.8.11-1 [809 kB]
Get:146 http://172.17.0.1/private stretch-staging/main armhf r-bioc-iranges armhf 2.4.7-1 [1470 kB]
Get:147 http://172.17.0.1/private stretch-staging/main armhf r-bioc-xvector armhf 0.10.0-1 [327 kB]
Get:148 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biostrings armhf 2.38.4-1 [13.5 MB]
Get:149 http://172.17.0.1/private stretch-staging/main armhf r-bioc-genomeinfodb all 1.6.0-1 [19.1 MB]
Get:150 http://172.17.0.1/private stretch-staging/main armhf r-cran-bitops armhf 1.0-6-1 [23.6 kB]
Get:151 http://172.17.0.1/private stretch-staging/main armhf r-bioc-genomicranges armhf 1.22.0-1 [1476 kB]
Get:152 http://172.17.0.1/private stretch-staging/main armhf r-bioc-rsamtools armhf 1.22.0-1 [3196 kB]
Get:153 http://172.17.0.1/private stretch-staging/main armhf r-bioc-summarizedexperiment all 1.0.0-1 [1284 kB]
Get:154 http://172.17.0.1/private stretch-staging/main armhf r-bioc-genomicalignments armhf 1.6.1-1 [1297 kB]
Get:155 http://172.17.0.1/private stretch-staging/main armhf r-cran-hwriter all 1.3.2-1 [137 kB]
Get:156 http://172.17.0.1/private stretch-staging/main armhf r-cran-lattice armhf 0.20-33-1 [713 kB]
Get:157 http://172.17.0.1/private stretch-staging/main armhf r-cran-rcolorbrewer all 1.1-2-1 [26.0 kB]
Get:158 http://172.17.0.1/private stretch-staging/main armhf r-cran-latticeextra armhf 0.6-28-1 [2059 kB]
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Setting up libkeyutils1:armhf (1.5.9-8) ...
Setting up libkrb5support0:armhf (1.13.2+dfsg-5) ...
Setting up libk5crypto3:armhf (1.13.2+dfsg-5) ...
Setting up libkrb5-3:armhf (1.13.2+dfsg-5) ...
Setting up libgssapi-krb5-2:armhf (1.13.2+dfsg-5) ...
Setting up libsasl2-modules-db:armhf (2.1.26.dfsg1-14+b1) ...
Setting up libsasl2-2:armhf (2.1.26.dfsg1-14+b1) ...
Setting up libldap-2.4-2:armhf (2.4.42+dfsg-2+rpi1+b2) ...
Setting up libsqlite3-0:armhf (3.10.2-1) ...
Setting up libicu55:armhf (55.1-7) ...
Setting up libxml2:armhf (2.9.3+dfsg1-1) ...
Setting up autotools-dev (20150820.1) ...
Setting up openssl (1.0.2f-2) ...
Setting up ca-certificates (20160104) ...
Setting up cdbs (0.4.130) ...
Setting up libglib2.0-0:armhf (2.46.2-3) ...
No schema files found: doing nothing.
Setting up libcroco3:armhf (0.6.11-1) ...
Setting up gettext (0.19.7-2) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up po-debconf (1.0.19) ...
Setting up libarchive-zip-perl (1.56-2) ...
Setting up libfile-stripnondeterminism-perl (0.015-1) ...
Setting up libgfortran3:armhf (5.3.1-8+rpi1) ...
Setting up libgfortran-5-dev:armhf (5.3.1-8+rpi1) ...
Setting up gfortran-5 (5.3.1-8+rpi1) ...
Setting up gfortran (4:5.3.1-1+rpi1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up libblas-common (3.6.0-2) ...
Setting up libblas3 (3.6.0-2) ...
update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode
Setting up libblas-dev (3.6.0-2) ...
update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode
Setting up libbz2-dev:armhf (1.0.6-8) ...
Setting up libpixman-1-0:armhf (0.33.6-1) ...
Setting up libxcb-render0:armhf (1.11.1-1) ...
Setting up libxcb-shm0:armhf (1.11.1-1) ...
Setting up libcairo2:armhf (1.14.6-1) ...
Setting up libnghttp2-14:armhf (1.7.1-2) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d-1+b1) ...
Setting up libcurl3:armhf (7.47.0-1) ...
Setting up libdatrie1:armhf (0.2.10-2) ...
Setting up libgraphite2-3:armhf (1.3.5-1) ...
Setting up libharfbuzz0b:armhf (1.0.1-1+b1) ...
Setting up libice6:armhf (2:1.0.9-1+b1) ...
Setting up libjpeg62-turbo:armhf (1:1.4.2-2) ...
Setting up libjpeg62-turbo-dev:armhf (1:1.4.2-2) ...
Setting up libjpeg-dev (1:1.4.2-2) ...
Setting up liblapack3 (3.6.0-2) ...
update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode
Setting up liblapack-dev (3.6.0-2) ...
update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
Setting up liblzma-dev:armhf (5.1.1alpha+20120614-2.1) ...
Setting up libtinfo-dev:armhf (6.0+20160213-1) ...
Setting up libncurses5-dev:armhf (6.0+20160213-1) ...
Setting up libthai-data (0.1.24-2) ...
Setting up libthai0:armhf (0.1.24-2) ...
Setting up libpango-1.0-0:armhf (1.38.1-1) ...
Setting up libpangoft2-1.0-0:armhf (1.38.1-1) ...
Setting up libpangocairo-1.0-0:armhf (1.38.1-1) ...
Setting up libpaper-utils (1.1.24+nmu4) ...
Setting up libpcre16-3:armhf (2:8.38-1) ...
Setting up libpcre32-3:armhf (2:8.38-1) ...
Setting up libpcre3-dev:armhf (2:8.38-1) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-2+b1) ...
Setting up libpng12-dev:armhf (1.2.54-3) ...
Setting up libreadline6-dev:armhf (6.3-8+b3) ...
Setting up libreadline-dev:armhf (6.3-8+b3) ...
Setting up libsm6:armhf (2:1.2.2-1+b1) ...
Setting up libtcl8.6:armhf (8.6.4+dfsg-3) ...
Setting up libtiff5:armhf (4.0.6-1) ...
Setting up libtk8.6:armhf (8.6.4+dfsg-3) ...
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 (3.2.3-6) ...
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 (3.2.3-6) ...
Setting up r-bioc-biocgenerics (0.16.0-1) ...
Setting up r-bioc-biobase (2.30.0-1) ...
Setting up r-cran-checkmate (1.6.0-1) ...
Setting up r-cran-bbmisc (1.9-1) ...
Setting up r-cran-brew (1.0-6-1) ...
Setting up r-cran-digest (0.6.9-1) ...
Setting up r-cran-dbi (0.3.1-1) ...
Setting up r-cran-rsqlite (1.0.0-2) ...
Setting up r-cran-pkgkitten (0.1.3-1) ...
Setting up r-cran-rcpp (0.12.3-1) ...
Setting up r-cran-plyr (1.8.3-1) ...
Setting up r-cran-magrittr (1.5-1) ...
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) ...
Setting up r-cran-fail (1.3-1) ...
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 (1.1.7-2) ...
Setting up r-cran-futile.options (1.0.0-2) ...
Setting up r-cran-futile.logger (1.4.1-1) ...
Setting up r-cran-snow (1:0.4.1-1) ...
Setting up r-bioc-biocparallel (1.4.0-1) ...
Setting up r-bioc-s4vectors (0.8.11-1) ...
Setting up r-bioc-iranges (2.4.7-1) ...
Setting up r-bioc-xvector (0.10.0-1) ...
Setting up r-bioc-biostrings (2.38.4-1) ...
Setting up r-bioc-genomeinfodb (1.6.0-1) ...
Setting up r-cran-bitops (1.0-6-1) ...
Setting up r-bioc-genomicranges (1.22.0-1) ...
Setting up r-bioc-rsamtools (1.22.0-1) ...
Setting up r-bioc-summarizedexperiment (1.0.0-1) ...
Setting up r-bioc-genomicalignments (1.6.1-1) ...
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 debhelper (9.20160115) ...
Setting up sbuild-build-depends-r-bioc-shortread-dummy (0.invalid.0) ...
Setting up dh-strip-nondeterminism (0.015-1) ...
Processing triggers for libc-bin (2.21-7) ...
Processing triggers for systemd (228-6) ...
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.
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 3.19.0-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.26-3 dpkg-dev_1.18.4 g++-5_5.3.1-8+rpi1 gcc-5_5.3.1-8+rpi1 libc6-dev_2.21-7 libstdc++-4.9-dev_4.9.3-10 libstdc++-5-dev_5.3.1-8+rpi1 libstdc++6_5.3.1-8+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: acl_2.2.52-3 adduser_3.113+nmu3 apt_1.2.3 autotools-dev_20150820.1 base-files_9.5+rpi1 base-passwd_3.5.39 bash_4.3-14 binutils_2.26-3 bsdmainutils_9.0.6 bsdutils_1:2.27.1-3 build-essential_11.7 bzip2_1.0.6-8 ca-certificates_20160104 cdbs_0.4.130 coreutils_8.24-1 cpio_2.11+dfsg-4.1 cpp_4:5.3.1-1+rpi1 cpp-5_5.3.1-8+rpi1 dash_0.5.8-2.1 debconf_1.5.58 debfoster_2.7-2 debhelper_9.20160115 debianutils_4.7 dh-strip-nondeterminism_0.015-1 diffutils_1:3.3-3 dmsetup_2:1.02.115-2 dpkg_1.18.4 dpkg-dev_1.18.4 e2fslibs_1.42.13-1 e2fsprogs_1.42.13-1 fakeroot_1.20.2-1 file_1:5.25-2 findutils_4.6.0+git+20160126-2 fontconfig_2.11.0-6.3 fontconfig-config_2.11.0-6.3 fonts-dejavu-core_2.35-1 g++_4:5.3.1-1+rpi1 g++-5_5.3.1-8+rpi1 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_4.9.3-10 gcc-5_5.3.1-8+rpi1 gcc-5-base_5.3.1-8+rpi1 gettext_0.19.7-2 gettext-base_0.19.7-2 gfortran_4:5.3.1-1+rpi1 gfortran-5_5.3.1-8+rpi1 gnupg_1.4.20-1 gpgv_1.4.20-1 grep_2.22-1 groff-base_1.22.3-7 gzip_1.6-4 hostname_3.16 init_1.24 init-system-helpers_1.24 initramfs-tools_0.120 initscripts_2.88dsf-59.2 insserv_1.14.0-5.2 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-7+rpi1 kmod_22-1 libacl1_2.2.52-3 libapparmor1_2.10-3 libapt-pkg4.12_1.0.9.10 libapt-pkg5.0_1.2.3 libarchive-zip-perl_1.56-2 libasan1_4.9.3-10 libasan2_5.3.1-8+rpi1 libatomic1_5.3.1-8+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_2.27.1-3 libbz2-1.0_1.0.6-8 libbz2-dev_1.0.6-8 libc-bin_2.21-7 libc-dev-bin_2.21-7 libc6_2.21-7 libc6-dev_2.21-7 libcairo2_1.14.6-1 libcap2_1:2.24-12 libcap2-bin_1:2.24-12 libcc1-0_5.3.1-8+rpi1 libcomerr2_1.42.13-1 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_1.10.6-1 libdebconfclient0_0.204 libdevmapper1.02.1_2:1.02.115-2 libdpkg-perl_1.18.4 libdrm2_2.4.66-2 libexpat1_2.1.0-7 libfakeroot_1.20.2-1 libfdisk1_2.27.1-3 libffi6_3.2.1-4 libfile-stripnondeterminism-perl_0.015-1 libfontconfig1_2.11.0-6.3 libfreetype6_2.6.1-0.1 libgc1c2_1:7.4.2-7.3 libgcc-4.9-dev_4.9.3-10 libgcc-5-dev_5.3.1-8+rpi1 libgcc1_1:5.3.1-8+rpi1 libgcrypt20_1.6.4-5 libgdbm3_1.8.3-13.1 libgfortran-5-dev_5.3.1-8+rpi1 libgfortran3_5.3.1-8+rpi1 libglib2.0-0_2.46.2-3 libgmp10_2:6.1.0+dfsg-2 libgnutls30_3.4.9-2 libgomp1_5.3.1-8+rpi1 libgpg-error0_1.21-1 libgraphite2-3_1.3.5-1 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_1.5.9-8 libklibc_2.0.4-7+rpi1 libkmod2_22-1 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~r131-1 liblzma-dev_5.1.1alpha+20120614-2.1 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.25-2 libmount1_2.27.1-3 libmpc3_1.0.3-1 libmpfr4_3.1.3-2 libncurses5_6.0+20160213-1 libncurses5-dev_6.0+20160213-1 libncursesw5_6.0+20160213-1 libnettle6_3.2-1 libnghttp2-14_1.7.1-2 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_1.38.1-1 libpangocairo-1.0-0_1.38.1-1 libpangoft2-1.0-0_1.38.1-1 libpaper-utils_1.1.24+nmu4 libpaper1_1.1.24+nmu4 libpcre16-3_2:8.38-1 libpcre3_2:8.38-1 libpcre3-dev_2:8.38-1 libpcre32-3_2:8.38-1 libpcrecpp0v5_2:8.38-1 libperl5.22_5.22.1-5 libpipeline1_1.4.1-2 libpixman-1-0_0.33.6-1 libpng12-0_1.2.54-3 libpng12-dev_1.2.54-3 libprocps3_2:3.3.9-9 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+b1 libsasl2-2_2.1.26.dfsg1-14+b1 libsasl2-modules-db_2.1.26.dfsg1-14+b1 libseccomp2_2.2.3-2 libselinux1_2.4-3 libsemanage-common_2.4-3 libsemanage1_2.4-3 libsepol1_2.4-2 libslang2_2.3.0-2+b1 libsm6_2:1.2.2-1+b1 libsmartcols1_2.27.1-3 libsqlite3-0_3.10.2-1 libss2_1.42.13-1 libssh2-1_1.5.0-2 libssl1.0.2_1.0.2f-2 libstdc++-4.9-dev_4.9.3-10 libstdc++-5-dev_5.3.1-8+rpi1 libstdc++6_5.3.1-8+rpi1 libsystemd0_228-6 libtasn1-6_4.7-3 libtcl8.6_8.6.4+dfsg-3 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+20160213-1 libtinfo5_6.0+20160213-1 libtk8.6_8.6.4+dfsg-3 libubsan0_5.3.1-8+rpi1 libudev1_228-6 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-28 libustr-1.0-1_1.0.4-5 libuuid1_2.27.1-3 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 make_4.1-5 makedev_2.3.1-93 man-db_2.7.5-1 manpages_4.04-1 mawk_1.3.3-17 mount_2.27.1-3 multiarch-support_2.21-7 nano_2.5.1-1 ncurses-base_6.0+20151024-2 ncurses-bin_6.0+20151024-2 openssl_1.0.2f-2 passwd_1:4.2-3.1 patch_2.7.5-1 perl_5.22.1-5 perl-base_5.22.1-5 perl-modules-5.22_5.22.1-7 po-debconf_1.0.19 procps_2:3.3.11-3 r-base-core_3.2.3-6 r-base-dev_3.2.3-6 r-bioc-biobase_2.30.0-1 r-bioc-biocgenerics_0.16.0-1 r-bioc-biocparallel_1.4.0-1 r-bioc-biostrings_2.38.4-1 r-bioc-genomeinfodb_1.6.0-1 r-bioc-genomicalignments_1.6.1-1 r-bioc-genomicranges_1.22.0-1 r-bioc-iranges_2.4.7-1 r-bioc-rsamtools_1.22.0-1 r-bioc-s4vectors_0.8.11-1 r-bioc-summarizedexperiment_1.0.0-1 r-bioc-xvector_0.10.0-1 r-cran-base64enc_0.1-2-1 r-cran-batchjobs_1.6-1 r-cran-bbmisc_1.9-1 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_0.3.1-1 r-cran-digest_0.6.9-1 r-cran-fail_1.3-1 r-cran-foreach_1.4.3-1 r-cran-futile.logger_1.4.1-1 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_1.1.7-2 r-cran-lattice_0.20-33-1 r-cran-latticeextra_0.6-28-1 r-cran-littler_0.3.0-2 r-cran-magrittr_1.5-1 r-cran-pkgkitten_0.1.3-1 r-cran-plyr_1.8.3-1 r-cran-rcolorbrewer_1.1-2-1 r-cran-rcpp_0.12.3-1 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_4.2.2-6.1 sensible-utils_0.0.9 startpar_0.59-3 systemd_228-6 systemd-sysv_228-6 sysv-rc_2.88dsf-59.2 sysvinit-utils_2.88dsf-59.2 tar_1.28-2.1 tzdata_2016a-1 ucf_3.0035 udev_228-6 unzip_6.0-20 util-linux_2.27.1-3 x11-common_1:7.7+13 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 Fri Nov 6 10:53:03 2015 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_1.28.0-1.dsc
dpkg-source: info: extracting r-bioc-shortread in r-bioc-shortread-1.28.0
dpkg-source: info: unpacking r-bioc-shortread_1.28.0.orig.tar.gz
dpkg-source: info: unpacking r-bioc-shortread_1.28.0-1.debian.tar.xz
dpkg-source: info: applying use_debian_packaged_zlib.patch
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LOGNAME=buildd
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-b83ec419-73e0-4cee-abc5-ccd4f32dc95b
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: source package r-bioc-shortread
dpkg-buildpackage: source version 1.28.0-1
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build r-bioc-shortread-1.28.0
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 (>= 3.2.3-6), 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=\"Fri, 06 Nov 2015 08:59:35 +0100\"" \
; \
else \
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-shortread/usr/lib/R/site-library \
--clean . \
"--built-timestamp=\"Fri, 06 Nov 2015 08:59:35 +0100\"" \
; \
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
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_1.28.0-1_armhf.deb'.
dpkg-deb: building package 'r-bioc-shortread' in '../r-bioc-shortread_1.28.0-1_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../r-bioc-shortread_1.28.0-1_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-1.28.0
dpkg-buildpackage: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 20160303-1034
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
r-bioc-shortread_1.28.0-1_armhf.changes:
----------------------------------------
Format: 1.8
Date: Fri, 06 Nov 2015 08:59:35 +0100
Source: r-bioc-shortread
Binary: r-bioc-shortread
Architecture: armhf
Version: 1.28.0-1
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 (1.28.0-1) unstable; urgency=medium
.
* New upstream version
* Ignore false positive lintian warnings
Checksums-Sha1:
dfefe3c5bc22db28e61b40bfd34e69d9d8a6aec0 125714 r-bioc-shortread-dbgsym_1.28.0-1_armhf.deb
327be606ff93621748cc53378156ee65b77c2f95 4187680 r-bioc-shortread_1.28.0-1_armhf.deb
Checksums-Sha256:
62002e7c445159082e3ced65316a3ccb081cd176cbb32236ac5b19f9dbf03a75 125714 r-bioc-shortread-dbgsym_1.28.0-1_armhf.deb
93c7a48c4758a5f261169aad831ea152042acade52fcdcaa3a4479fbe0a77f8d 4187680 r-bioc-shortread_1.28.0-1_armhf.deb
Files:
a1cde429ffe247a34eea26a5bb931eed 125714 debug extra r-bioc-shortread-dbgsym_1.28.0-1_armhf.deb
bfe0859f8c54e01d6306280917de86ac 4187680 gnu-r optional r-bioc-shortread_1.28.0-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
r-bioc-shortread-dbgsym_1.28.0-1_armhf.deb
------------------------------------------
new debian package, version 2.0.
size 125714 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: 1.28.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 159
Depends: r-bioc-shortread (= 1.28.0-1)
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: f085aadeec89e04d3ea791c72fdcc07090c109e8
drwxr-xr-x root/root 0 2016-03-03 10:34 ./
drwxr-xr-x root/root 0 2016-03-03 10:34 ./usr/
drwxr-xr-x root/root 0 2016-03-03 10:34 ./usr/lib/
drwxr-xr-x root/root 0 2016-03-03 10:34 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-03-03 10:34 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-03-03 10:34 ./usr/lib/debug/.build-id/f0/
-rw-r--r-- root/root 152548 2016-03-03 10:34 ./usr/lib/debug/.build-id/f0/85aadeec89e04d3ea791c72fdcc07090c109e8.debug
drwxr-xr-x root/root 0 2016-03-03 10:34 ./usr/share/
drwxr-xr-x root/root 0 2016-03-03 10:34 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-03-03 10:34 ./usr/share/doc/r-bioc-shortread-dbgsym -> r-bioc-shortread
r-bioc-shortread_1.28.0-1_armhf.deb
-----------------------------------
new debian package, version 2.0.
size 4187680 bytes: control archive=4307 bytes.
974 bytes, 16 lines control
10878 bytes, 114 lines md5sums
Package: r-bioc-shortread
Version: 1.28.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 5906
Depends: r-base-core (>= 3.2.3-6), 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 (>= 1.6.0), 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 2016-03-03 10:34 ./
drwxr-xr-x root/root 0 2016-03-03 10:34 ./usr/
drwxr-xr-x root/root 0 2016-03-03 10:31 ./usr/lib/
drwxr-xr-x root/root 0 2016-03-03 10:31 ./usr/lib/R/
drwxr-xr-x root/root 0 2016-03-03 10:34 ./usr/lib/R/site-library/
drwxr-xr-x root/root 0 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/
-rw-r--r-- root/root 1158 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/CITATION
-rw-r--r-- root/root 1320 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/DESCRIPTION
-rw-r--r-- root/root 5917 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/INDEX
drwxr-xr-x root/root 0 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/Meta/
-rw-r--r-- root/root 5588 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/Meta/Rd.rds
-rw-r--r-- root/root 5741 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/Meta/hsearch.rds
-rw-r--r-- root/root 4149 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/Meta/links.rds
-rw-r--r-- root/root 848 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/Meta/nsInfo.rds
-rw-r--r-- root/root 1377 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/Meta/package.rds
-rw-r--r-- root/root 262 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/Meta/vignette.rds
-rw-r--r-- root/root 1147 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/NAMESPACE
-rw-r--r-- root/root 11987 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/NEWS
drwxr-xr-x root/root 0 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/R/
-rw-r--r-- root/root 1056 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/R/ShortRead
-rw-r--r-- root/root 803014 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/R/ShortRead.rdb
-rw-r--r-- root/root 11865 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/R/ShortRead.rdx
drwxr-xr-x root/root 0 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/doc/
-rw-r--r-- root/root 5961 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/doc/Overview.R
-rw-r--r-- root/root 15627 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/doc/Overview.Rnw
-rw-r--r-- root/root 132389 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/doc/Overview.pdf
-rw-r--r-- root/root 1354 2016-03-03 10:33 ./usr/lib/R/site-library/ShortRead/doc/index.html
drwxr-xr-x root/root 0 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/
drwxr-xr-x root/root 0 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/
drwxr-xr-x root/root 0 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/
drwxr-xr-x root/root 0 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/
drwxr-xr-x root/root 0 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/
-rw-r--r-- root/root 31740 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_1_sequence.txt
-rw-r--r-- root/root 121368 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_2_export.txt
-rw-r--r-- root/root 90912 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/GERALD/s_5_0001_realign.txt
-rw-r--r-- root/root 184320 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/s_1_0001_prb.txt
-rw-r--r-- root/root 12452 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/s_1_0001_seq.txt
-rw-r--r-- root/root 21534 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/Bustard/s_1_1_0001_qseq.txt
-rw-r--r-- root/root 261216 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/s_1_0001_int.txt
-rw-r--r-- root/root 261028 2016-03-03 10:31 ./usr/lib/R/site-library/ShortRead/extdata/Data/C1-36Firecrest/s_1_0001_nse.txt
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Purging /<<BUILDDIR>>
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| Summary |
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Build Architecture: armhf
Build-Space: 18912
Build-Time: 228
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 683
Job: r-bioc-shortread_1.28.0-1
Machine Architecture: armhf
Package: r-bioc-shortread
Package-Time: 958
Source-Version: 1.28.0-1
Space: 18912
Status: successful
Version: 1.28.0-1
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Finished at 20160303-1034
Build needed 00:15:58, 18912k disc space