r-bioc-variantannotation →
1.18.0-1 →
armhf → 2016-05-17 12:51:01
sbuild (Debian sbuild) 0.68.0 (15 Jan 2016) on bm-wb-01
+==============================================================================+
| r-bioc-variantannotation 1.18.0-1 (armhf) 17 May 2016 12:27 |
+==============================================================================+
Package: r-bioc-variantannotation
Version: 1.18.0-1
Source Version: 1.18.0-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/r-bioc-variantannotation-jwPAZx/r-bioc-variantannotation-1.18.0' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-variantannotation-jwPAZx' with '<<BUILDDIR>>'
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/stretch-staging-armhf-sbuild-34eaeec6-be58-4721-aa41-40cbcf41a2d2' 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 [8968 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.0 MB]
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Reading package lists...
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'r-bioc-variantannotation' packaging is maintained in the 'Svn' version control system at:
svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-variantannotation/trunk/
Need to get 1646 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main r-bioc-variantannotation 1.18.0-1 (dsc) [2276 B]
Get:2 http://172.17.0.1/private stretch-staging/main r-bioc-variantannotation 1.18.0-1 (tar) [1636 kB]
Get:3 http://172.17.0.1/private stretch-staging/main r-bioc-variantannotation 1.18.0-1 (diff) [7184 B]
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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-24QdG5/apt_archive/sbuild-build-depends-core-dummy.deb'.
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W: file:///<<BUILDDIR>>/resolver-24QdG5/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 39 not upgraded.
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debconf: delaying package configuration, since apt-utils is not installed
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+------------------------------------------------------------------------------+
| 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-bioc-genomicfeatures (>= 1.22.1), r-bioc-bsgenome (>= 1.38.0)
Filtered Build-Depends: debhelper (>= 9), cdbs, r-base-dev, r-bioc-genomicfeatures (>= 1.22.1), r-bioc-bsgenome (>= 1.38.0)
dpkg-deb: building package 'sbuild-build-depends-r-bioc-variantannotation-dummy' in '/<<BUILDDIR>>/resolver-s63R_F/apt_archive/sbuild-build-depends-r-bioc-variantannotation-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-s63R_F/apt_archive ./ InRelease
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Get:5 file:/<<BUILDDIR>>/resolver-s63R_F/apt_archive ./ Packages [581 B]
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Reading package lists...
W: file:///<<BUILDDIR>>/resolver-s63R_F/apt_archive/./Release.gpg: Signature by key 3493EC2B8E6DC280C121C60435506D9A48F77B2E uses weak digest algorithm (SHA1)
Reading package lists...
Install r-bioc-variantannotation 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-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel
r-bioc-biomart r-bioc-biostrings r-bioc-bsgenome r-bioc-genomeinfodb
r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges
r-bioc-iranges r-bioc-rsamtools r-bioc-rtracklayer 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-iterators r-cran-lambda.r r-cran-littler
r-cran-magrittr r-cran-pkgkitten r-cran-plyr r-cran-rcpp r-cran-rcurl
r-cran-rsqlite r-cran-sendmailr r-cran-snow r-cran-stringi r-cran-stringr
r-cran-xml 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-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel
r-bioc-biomart r-bioc-biostrings r-bioc-bsgenome r-bioc-genomeinfodb
r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges
r-bioc-iranges r-bioc-rsamtools r-bioc-rtracklayer 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-iterators r-cran-lambda.r r-cran-littler
r-cran-magrittr r-cran-pkgkitten r-cran-plyr r-cran-rcpp r-cran-rcurl
r-cran-rsqlite r-cran-sendmailr r-cran-snow r-cran-stringi r-cran-stringr
r-cran-xml sbuild-build-depends-r-bioc-variantannotation-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, 168 newly installed, 0 to remove and 26 not upgraded.
Need to get 207 MB/207 MB of archives.
After this operation, 282 MB of additional disk space will be used.
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Get:2 http://172.17.0.1/private stretch-staging/main armhf gcc-6-base armhf 6.1.1-1+rpi1 [170 kB]
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Get:18 http://172.17.0.1/private stretch-staging/main armhf libpaper1 armhf 1.1.24+nmu4 [21.4 kB]
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Get:21 http://172.17.0.1/private stretch-staging/main armhf libxau6 armhf 1:1.0.8-1 [19.9 kB]
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Get:32 http://172.17.0.1/private stretch-staging/main armhf g++-5 armhf 5.3.1-19 [24.5 MB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf gcc-5 armhf 5.3.1-19 [5289 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf cpp-5 armhf 5.3.1-19 [22.9 MB]
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Get:39 http://172.17.0.1/private stretch-staging/main armhf libstdc++-5-dev armhf 5.3.1-19 [1430 kB]
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Get:43 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.25-2 [250 kB]
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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 2.48.1-1 [2548 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 5.3.1-19 [182 kB]
Get:87 http://172.17.0.1/private stretch-staging/main armhf gfortran-5 armhf 5.3.1-19 [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-cran-dbi armhf 0.4-1-1 [201 kB]
Get:140 http://172.17.0.1/private stretch-staging/main armhf r-cran-rsqlite armhf 1.0.0-2 [302 kB]
Get:141 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biocgenerics all 0.18.0-1 [475 kB]
Get:142 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biobase armhf 2.32.0-1 [1995 kB]
Get:143 http://172.17.0.1/private stretch-staging/main armhf r-bioc-s4vectors armhf 0.10.0-1 [912 kB]
Get:144 http://172.17.0.1/private stretch-staging/main armhf r-bioc-iranges armhf 2.6.0-1 [1417 kB]
Get:145 http://172.17.0.1/private stretch-staging/main armhf r-bioc-genomeinfodb all 1.8.0-1 [19.1 MB]
Get:146 http://172.17.0.1/private stretch-staging/main armhf r-bioc-annotationdbi all 1.34.0-1 [4188 kB]
Get:147 http://172.17.0.1/private stretch-staging/main armhf r-cran-checkmate armhf 1.6.0-1 [268 kB]
Get:148 http://172.17.0.1/private stretch-staging/main armhf r-cran-bbmisc armhf 1.9-2 [279 kB]
Get:149 http://172.17.0.1/private stretch-staging/main armhf r-cran-brew armhf 1.0-6-1 [61.3 kB]
Get:150 http://172.17.0.1/private stretch-staging/main armhf r-cran-digest armhf 0.6.9-1 [103 kB]
Get:151 http://172.17.0.1/private stretch-staging/main armhf r-cran-pkgkitten all 0.1.3-1 [18.3 kB]
Get:152 http://172.17.0.1/private stretch-staging/main armhf r-cran-rcpp armhf 0.12.4-1 [2149 kB]
Get:153 http://172.17.0.1/private stretch-staging/main armhf r-cran-plyr armhf 1.8.3-2 [728 kB]
Get:154 http://172.17.0.1/private stretch-staging/main armhf r-cran-magrittr armhf 1.5-3 [146 kB]
Get:155 http://172.17.0.1/private stretch-staging/main armhf r-cran-stringi armhf 1.0-1-1 [623 kB]
Get:156 http://172.17.0.1/private stretch-staging/main armhf r-cran-stringr all 1.0.0-1 [76.6 kB]
Get:157 http://172.17.0.1/private stretch-staging/main armhf r-cran-base64enc armhf 0.1-2-1 [19.6 kB]
Get:158 http://172.17.0.1/private stretch-staging/main armhf r-cran-sendmailr armhf 1.2-1-1 [29.0 kB]
Get:159 http://172.17.0.1/private stretch-staging/main armhf r-cran-fail armhf 1.3-1 [43.2 kB]
Get:160 http://172.17.0.1/private stretch-staging/main armhf r-cran-batchjobs armhf 1.6-1 [422 kB]
Get:161 http://172.17.0.1/private stretch-staging/main armhf r-cran-codetools all 0.2-14-1 [46.5 kB]
Get:162 http://172.17.0.1/private stretch-staging/main armhf r-cran-iterators all 1.0.8-1 [306 kB]
Get:163 http://172.17.0.1/private stretch-staging/main armhf r-cran-foreach all 1.4.3-1 [371 kB]
Get:164 http://172.17.0.1/private stretch-staging/main armhf r-cran-lambda.r all 1.1.7-3 [66.4 kB]
Get:165 http://172.17.0.1/private stretch-staging/main armhf r-cran-futile.options all 1.0.0-2 [15.4 kB]
Get:166 http://172.17.0.1/private stretch-staging/main armhf r-cran-futile.logger all 1.4.1-3 [84.3 kB]
Get:167 http://172.17.0.1/private stretch-staging/main armhf r-cran-snow all 1:0.4.1-1 [64.9 kB]
Get:168 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biocparallel all 1.6.0-1 [626 kB]
Get:169 http://172.17.0.1/private stretch-staging/main armhf r-cran-xml armhf 3.98-1.4-1 [1647 kB]
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-cran-rcurl armhf 1.95-4.7-1 [621 kB]
Get:172 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biomart all 2.28.0-1 [386 kB]
Get:173 http://172.17.0.1/private stretch-staging/main armhf r-bioc-xvector armhf 0.12.0-1 [329 kB]
Get:174 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biostrings armhf 2.40.0-1 [13.5 MB]
Get:175 http://172.17.0.1/private stretch-staging/main armhf r-bioc-genomicranges armhf 1.24.0-1 [1301 kB]
Get:176 http://172.17.0.1/private stretch-staging/main armhf r-bioc-rsamtools armhf 1.24.0-1 [3197 kB]
Get:177 http://172.17.0.1/private stretch-staging/main armhf r-bioc-summarizedexperiment all 1.2.0-1 [1292 kB]
Get:178 http://172.17.0.1/private stretch-staging/main armhf r-bioc-genomicalignments armhf 1.8.0-1 [1444 kB]
Get:179 http://172.17.0.1/private stretch-staging/main armhf r-bioc-rtracklayer armhf 1.32.0-1 [1760 kB]
Get:180 http://172.17.0.1/private stretch-staging/main armhf r-bioc-bsgenome all 1.40.0-1 [6444 kB]
Get:181 http://172.17.0.1/private stretch-staging/main armhf r-bioc-genomicfeatures all 1.22.4-1 [1031 kB]
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Processing triggers for libc-bin (2.22-7) ...
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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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Setting up libxt6:armhf (1:1.1.5-1) ...
Setting up zip (3.0-11) ...
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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
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Setting up r-cran-dbi (0.4-1-1) ...
Setting up r-cran-rsqlite (1.0.0-2) ...
Setting up r-bioc-biocgenerics (0.18.0-1) ...
Setting up r-bioc-biobase (2.32.0-1) ...
Setting up r-bioc-s4vectors (0.10.0-1) ...
Setting up r-bioc-iranges (2.6.0-1) ...
Setting up r-bioc-genomeinfodb (1.8.0-1) ...
Setting up r-bioc-annotationdbi (1.34.0-1) ...
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-pkgkitten (0.1.3-1) ...
Setting up r-cran-rcpp (0.12.4-1) ...
Setting up r-cran-plyr (1.8.3-2) ...
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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 (1.1.7-3) ...
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-cran-xml (3.98-1.4-1) ...
Setting up r-cran-bitops (1.0-6-1) ...
Setting up r-cran-rcurl (1.95-4.7-1) ...
Setting up r-bioc-biomart (2.28.0-1) ...
Setting up r-bioc-xvector (0.12.0-1) ...
Setting up r-bioc-biostrings (2.40.0-1) ...
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-bioc-rtracklayer (1.32.0-1) ...
Setting up r-bioc-bsgenome (1.40.0-1) ...
Setting up r-bioc-genomicfeatures (1.22.4-1) ...
Setting up dh-autoreconf (12) ...
Setting up debhelper (9.20160403) ...
Setting up sbuild-build-depends-r-bioc-variantannotation-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_5.3.1-19 gcc-5_5.3.1-19 libc6-dev_2.22-7 libstdc++-5-dev_5.3.1-19 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_5.3.1-19 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_5.3.1-19 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_5.3.1-19 gcc-5-base_5.3.1-19 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_5.3.1-19 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_5.3.1-19 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_5.3.1-19 libgcc1_1:6.1.1-1+rpi1 libgcrypt20_1.7.0-2 libgdbm3_1.8.3-13.1 libgfortran-5-dev_5.3.1-19 libgfortran3_6.1.1-1+rpi1 libglib2.0-0_2.48.1-1 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_5.3.1-19 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-annotationdbi_1.34.0-1 r-bioc-biobase_2.32.0-1 r-bioc-biocgenerics_0.18.0-1 r-bioc-biocparallel_1.6.0-1 r-bioc-biomart_2.28.0-1 r-bioc-biostrings_2.40.0-1 r-bioc-bsgenome_1.40.0-1 r-bioc-genomeinfodb_1.8.0-1 r-bioc-genomicalignments_1.8.0-1 r-bioc-genomicfeatures_1.22.4-1 r-bioc-genomicranges_1.24.0-1 r-bioc-iranges_2.6.0-1 r-bioc-rsamtools_1.24.0-1 r-bioc-rtracklayer_1.32.0-1 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_0.4-1-1 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-iterators_1.0.8-1 r-cran-lambda.r_1.1.7-3 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-rcpp_0.12.4-1 r-cran-rcurl_1.95-4.7-1 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 r-cran-xml_3.98-1.4-1 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-variantannotation-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 Wed May 11 08:17:00 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-variantannotation_1.18.0-1.dsc
dpkg-source: info: extracting r-bioc-variantannotation in r-bioc-variantannotation-1.18.0
dpkg-source: info: unpacking r-bioc-variantannotation_1.18.0.orig.tar.gz
dpkg-source: info: unpacking r-bioc-variantannotation_1.18.0-1.debian.tar.xz
dpkg-source: info: applying use_debian_packaged_zlib.patch
dpkg-source: info: applying drop_tests_requiring_large_data_sets.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-34eaeec6-be58-4721-aa41-40cbcf41a2d2
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: source package r-bioc-variantannotation
dpkg-buildpackage: source version 1.18.0-1
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build r-bioc-variantannotation-1.18.0
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-variantannotation.substvars
if test -f /usr/bin/xvfb-run; then \
xvfb-run -a \
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-variantannotation/usr/lib/R/site-library --clean \
. \
"--built-timestamp=\"Wed, 11 May 2016 10:05:34 +0200\"" \
; \
else \
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-variantannotation/usr/lib/R/site-library \
--clean . \
"--built-timestamp=\"Wed, 11 May 2016 10:05:34 +0200\"" \
; \
fi
* installing *source* package 'VariantAnnotation' ...
** libs
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -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 -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -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 -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_init_VariantAnnotation.c -o R_init_VariantAnnotation.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -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 -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dna_hash.c -o dna_hash.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rle.c -o rle.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c strhash.c -o strhash.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utilities.c -o utilities.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vcffile.c -o vcffile.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vcftype.c -o vcftype.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -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" -I"/usr/lib/R/site-library/Rsamtools/include" -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c writevcf.c -o writevcf.o
gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-z,relro -o VariantAnnotation.so Biostrings_stubs.o IRanges_stubs.o R_init_VariantAnnotation.o XVector_stubs.o dna_hash.o rle.o strhash.o utilities.o vcffile.o vcftype.o writevcf.o /usr/lib/R/site-library/Rsamtools/usrlib//libbam.a /usr/lib/R/site-library/Rsamtools/usrlib//libbcf.a /usr/lib/R/site-library/Rsamtools/usrlib//libtabix.a -lz -pthread -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-variantannotation/usr/lib/R/site-library/VariantAnnotation/libs
** R
** inst
** preparing package for lazy loading
Creating a new generic function for 'tabulate' in package 'VariantAnnotation'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (VariantAnnotation)
rm -vf /<<PKGBUILDDIR>>/debian/r-bioc-variantannotation/usr/lib/R/site-library/R.css \
/<<PKGBUILDDIR>>/debian/r-bioc-variantannotation/usr/lib/R/site-library/VariantAnnotation/COPYING \
/<<PKGBUILDDIR>>/debian/r-bioc-variantannotation/usr/lib/R/site-library/VariantAnnotation/LICENSE.txt \
/<<PKGBUILDDIR>>/debian/r-bioc-variantannotation/usr/lib/R/site-library/VariantAnnotation/LICENSE
if test -f debian/overrides; then \
install -d /<<PKGBUILDDIR>>/debian/r-bioc-variantannotation/usr/share/lintian/overrides ; \
install -m 0644 debian/overrides \
/<<PKGBUILDDIR>>/debian/r-bioc-variantannotation/usr/share/lintian/overrides/r-bioc-variantannotation; \
fi
Adding cdbs dependencies to debian/r-bioc-variantannotation.substvars
dh_installdirs -pr-bioc-variantannotation
dh_installdocs -pr-bioc-variantannotation ./NEWS
dh_installexamples -pr-bioc-variantannotation
dh_installman -pr-bioc-variantannotation
dh_installinfo -pr-bioc-variantannotation
dh_installmenu -pr-bioc-variantannotation
dh_installcron -pr-bioc-variantannotation
dh_installinit -pr-bioc-variantannotation
dh_installdebconf -pr-bioc-variantannotation
dh_installemacsen -pr-bioc-variantannotation
dh_installcatalogs -pr-bioc-variantannotation
dh_installpam -pr-bioc-variantannotation
dh_installlogrotate -pr-bioc-variantannotation
dh_installlogcheck -pr-bioc-variantannotation
dh_installchangelogs -pr-bioc-variantannotation
dh_installudev -pr-bioc-variantannotation
dh_lintian -pr-bioc-variantannotation
dh_bugfiles -pr-bioc-variantannotation
dh_install -pr-bioc-variantannotation
dh_link -pr-bioc-variantannotation
dh_installmime -pr-bioc-variantannotation
dh_installgsettings -pr-bioc-variantannotation
dh_strip -pr-bioc-variantannotation
dh_compress -pr-bioc-variantannotation
dh_fixperms -pr-bioc-variantannotation
dh_makeshlibs -pr-bioc-variantannotation
dh_installdeb -pr-bioc-variantannotation
dh_perl -pr-bioc-variantannotation
dh_shlibdeps -pr-bioc-variantannotation
dh_gencontrol -pr-bioc-variantannotation
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-variantannotation
dh_builddeb -pr-bioc-variantannotation
dpkg-deb: building package 'r-bioc-variantannotation-dbgsym' in '../r-bioc-variantannotation-dbgsym_1.18.0-1_armhf.deb'.
dpkg-deb: building package 'r-bioc-variantannotation' in '../r-bioc-variantannotation_1.18.0-1_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../r-bioc-variantannotation_1.18.0-1_armhf.changes
dpkg-genchanges: warning: package r-bioc-variantannotation-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-variantannotation-1.18.0
dpkg-buildpackage: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 20160517-1248
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
r-bioc-variantannotation_1.18.0-1_armhf.changes:
------------------------------------------------
Format: 1.8
Date: Wed, 11 May 2016 10:05:34 +0200
Source: r-bioc-variantannotation
Binary: r-bioc-variantannotation
Architecture: armhf
Version: 1.18.0-1
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
r-bioc-variantannotation - BioConductor annotation of genetic variants
Changes:
r-bioc-variantannotation (1.18.0-1) unstable; urgency=medium
.
* New upstream version
* cme fix dpkg-control
Checksums-Sha1:
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f7e6650c71f37d3e2815e744829008f834ac89c2 2169478 r-bioc-variantannotation_1.18.0-1_armhf.deb
Checksums-Sha256:
19adaab36e1ba8610be3b9e0511fc5feba457c068bd2c342723d9989174aebe6 62622 r-bioc-variantannotation-dbgsym_1.18.0-1_armhf.deb
e632f98e42e81b5d7c8db2c9f6ab66d636becb921b47b1765f2ac20dbe81f9c3 2169478 r-bioc-variantannotation_1.18.0-1_armhf.deb
Files:
fc22bcd60e8db66efe06ae13c0421e22 62622 debug extra r-bioc-variantannotation-dbgsym_1.18.0-1_armhf.deb
2fbbc004a52b3edba79ce2ad5f3a14e5 2169478 gnu-r optional r-bioc-variantannotation_1.18.0-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
r-bioc-variantannotation-dbgsym_1.18.0-1_armhf.deb
--------------------------------------------------
new debian package, version 2.0.
size 62622 bytes: control archive=522 bytes.
520 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: r-bioc-variantannotation-dbgsym
Source: r-bioc-variantannotation
Version: 1.18.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 90
Depends: r-bioc-variantannotation (= 1.18.0-1)
Section: debug
Priority: extra
Homepage: http://bioconductor.org/packages/release/bioc/html/VariantAnnotation.html
Description: Debug symbols for r-bioc-variantannotation
Auto-Built-Package: debug-symbols
Build-Ids: 738c2dd1dc349e0e2aa3f141aa7c3e35a79c901f
drwxr-xr-x root/root 0 2016-05-17 12:48 ./
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/lib/
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/lib/debug/.build-id/73/
-rw-r--r-- root/root 81892 2016-05-17 12:48 ./usr/lib/debug/.build-id/73/8c2dd1dc349e0e2aa3f141aa7c3e35a79c901f.debug
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/share/
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-05-17 12:48 ./usr/share/doc/r-bioc-variantannotation-dbgsym -> r-bioc-variantannotation
r-bioc-variantannotation_1.18.0-1_armhf.deb
-------------------------------------------
new debian package, version 2.0.
size 2169478 bytes: control archive=2813 bytes.
665 bytes, 13 lines control
6983 bytes, 70 lines md5sums
Package: r-bioc-variantannotation
Version: 1.18.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2707
Depends: r-base-core (>= 3.3.0-1), r-api-3, libc6 (>= 2.15), zlib1g (>= 1:1.2.3.3), r-bioc-genomicfeatures (>= 1.22.0), r-bioc-bsgenome (>= 1.38.0)
Suggests: r-bioc-snpstats
Section: gnu-r
Priority: optional
Homepage: http://bioconductor.org/packages/release/bioc/html/VariantAnnotation.html
Description: BioConductor annotation of genetic variants
This BioConductor package provides R functions to annotate variants,
compute amino acid coding changess and to predict coding outcomes.
drwxr-xr-x root/root 0 2016-05-17 12:48 ./
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/
drwxr-xr-x root/root 0 2016-05-17 12:43 ./usr/lib/
drwxr-xr-x root/root 0 2016-05-17 12:43 ./usr/lib/R/
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/lib/R/site-library/
drwxr-xr-x root/root 0 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/
-rw-r--r-- root/root 1768 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/CITATION
-rw-r--r-- root/root 1784 2016-05-17 12:43 ./usr/lib/R/site-library/VariantAnnotation/DESCRIPTION
-rw-r--r-- root/root 1563 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/INDEX
drwxr-xr-x root/root 0 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/Meta/
-rw-r--r-- root/root 3274 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/Meta/Rd.rds
-rw-r--r-- root/root 3392 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/Meta/hsearch.rds
-rw-r--r-- root/root 2826 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/Meta/links.rds
-rw-r--r-- root/root 1533 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/Meta/nsInfo.rds
-rw-r--r-- root/root 1668 2016-05-17 12:43 ./usr/lib/R/site-library/VariantAnnotation/Meta/package.rds
-rw-r--r-- root/root 245 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/Meta/vignette.rds
-rw-r--r-- root/root 3171 2016-05-17 12:43 ./usr/lib/R/site-library/VariantAnnotation/NAMESPACE
-rw-r--r-- root/root 14842 2016-05-17 12:43 ./usr/lib/R/site-library/VariantAnnotation/NEWS
drwxr-xr-x root/root 0 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/R/
-rw-r--r-- root/root 1056 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/R/VariantAnnotation
-rw-r--r-- root/root 617489 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/R/VariantAnnotation.rdb
-rw-r--r-- root/root 8819 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/R/VariantAnnotation.rdx
drwxr-xr-x root/root 0 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/doc/
-rw-r--r-- root/root 9381 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/doc/VariantAnnotation.R
-rw-r--r-- root/root 21081 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/doc/VariantAnnotation.Rnw
-rw-r--r-- root/root 204587 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/doc/VariantAnnotation.pdf
-rw-r--r-- root/root 3023 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/doc/filterVcf.R
-rw-r--r-- root/root 12561 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/doc/filterVcf.Rnw
-rw-r--r-- root/root 140749 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/doc/filterVcf.pdf
-rw-r--r-- root/root 1976 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/doc/index.html
drwxr-xr-x root/root 0 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/
-rw-r--r-- root/root 561698 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/chr22.vcf.gz
-rw-r--r-- root/root 655 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/chr22.vcf.gz.tbi
-rw-r--r-- root/root 113168 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/chr7-sub.vcf.gz
-rw-r--r-- root/root 744 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/chr7-sub.vcf.gz.tbi
-rw-r--r-- root/root 1892 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/ex2.vcf
-rw-r--r-- root/root 24819 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/gl_chr1.vcf
-rw-r--r-- root/root 124778 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/h1187-10k.vcf.gz
-rw-r--r-- root/root 441 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/h1187-10k.vcf.gz.tbi
-rw-r--r-- root/root 374336 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/hapmap_exome_chr22.vcf.gz
-rw-r--r-- root/root 4503 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/hapmap_exome_chr22.vcf.gz.tbi
-rw-r--r-- root/root 3060 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/extdata/structural.vcf
drwxr-xr-x root/root 0 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/help/
-rw-r--r-- root/root 14942 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/help/AnIndex
-rw-r--r-- root/root 181767 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/help/VariantAnnotation.rdb
-rw-r--r-- root/root 800 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/help/VariantAnnotation.rdx
-rw-r--r-- root/root 2892 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/help/aliases.rds
-rw-r--r-- root/root 409 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/help/paths.rds
drwxr-xr-x root/root 0 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/html/
-rw-r--r-- root/root 35309 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/html/00Index.html
-rw-r--r-- root/root 1335 2016-05-17 12:47 ./usr/lib/R/site-library/VariantAnnotation/html/R.css
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/lib/R/site-library/VariantAnnotation/libs/
-rw-r--r-- root/root 108840 2016-05-17 12:48 ./usr/lib/R/site-library/VariantAnnotation/libs/VariantAnnotation.so
drwxr-xr-x root/root 0 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/scripts/
-rw-r--r-- root/root 10914 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/scripts/test_Rplinkseq.R
drwxr-xr-x root/root 0 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/
drwxr-xr-x root/root 0 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/
-rw-r--r-- root/root 602 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/FORMAT_header_no_SAMPLEs.vcf
-rw-r--r-- root/root 3074 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/VarScan_header.vcf
-rw-r--r-- root/root 3700 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/banded_gvcf.vcf
-rw-r--r-- root/root 1836 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/expand.vcf
-rw-r--r-- root/root 614 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/fewer-FORMAT-than-GENO.vcf
-rw-r--r-- root/root 553 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/missing-FORMAT-metadata-elt.vcf
-rw-r--r-- root/root 2970 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/mixedStructural.vcf
-rw-r--r-- root/root 439 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/multiple_INFO_fields.vcf
-rw-r--r-- root/root 3044 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/negative_FORMAT_Number.vcf
-rw-r--r-- root/root 287 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/no_FORMAT_column.vcf
-rw-r--r-- root/root 573 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/no_GENO_row.vcf
-rw-r--r-- root/root 300 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/no_INFO_header.vcf
-rw-r--r-- root/root 1679 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/cases/unspecified_INFO_FORMAT_fields.vcf
-rw-r--r-- root/root 2878 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_ScanVcfParam-class.R
-rw-r--r-- root/root 9584 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_VCF-class.R
-rw-r--r-- root/root 11047 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_VRanges-class.R
-rw-r--r-- root/root 2068 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_expand-methods.R
-rw-r--r-- root/root 5030 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_filterVcf.R
-rw-r--r-- root/root 7740 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_genotypeToSnpMatrix.R
-rw-r--r-- root/root 3839 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_isSNV.R
-rw-r--r-- root/root 9170 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_readVcf-methods.R
-rw-r--r-- root/root 4362 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_scanVcf.R
-rw-r--r-- root/root 1355 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_snpSummary.R
-rw-r--r-- root/root 635 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_summarizeVariants-methods.R
-rw-r--r-- root/root 3770 2016-05-17 12:46 ./usr/lib/R/site-library/VariantAnnotation/unitTests/test_writeVcf-methods.R
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/share/
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-05-17 12:48 ./usr/share/doc/r-bioc-variantannotation/
-rw-r--r-- root/root 5276 2016-05-03 21:34 ./usr/share/doc/r-bioc-variantannotation/NEWS.gz
-rw-r--r-- root/root 1506 2014-07-24 07:42 ./usr/share/doc/r-bioc-variantannotation/README.test
-rw-r--r-- root/root 417 2016-05-11 08:05 ./usr/share/doc/r-bioc-variantannotation/changelog.Debian.gz
-rw-r--r-- root/root 5411 2014-07-24 09:00 ./usr/share/doc/r-bioc-variantannotation/copyright
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 7620
Build-Time: 356
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 854
Job: r-bioc-variantannotation_1.18.0-1
Machine Architecture: armhf
Package: r-bioc-variantannotation
Package-Time: 1256
Source-Version: 1.18.0-1
Space: 7620
Status: successful
Version: 1.18.0-1
--------------------------------------------------------------------------------
Finished at 20160517-1248
Build needed 00:20:56, 7620k disc space