r-bioc-biostrings →
2.40.2-1 →
armhf → 2016-08-22 16:41:41
sbuild (Debian sbuild) 0.68.0 (15 Jan 2016) on bm-wb-01
+==============================================================================+
| r-bioc-biostrings 2.40.2-1 (armhf) 22 Aug 2016 16:20 |
+==============================================================================+
Package: r-bioc-biostrings
Version: 2.40.2-1
Source Version: 2.40.2-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/r-bioc-biostrings-0jqdo7/r-bioc-biostrings-2.40.2' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-biostrings-0jqdo7' with '<<BUILDDIR>>'
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/stretch-staging-armhf-sbuild-6f8026d7-8441-4078-b0ff-a9522af8fa64' 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 [9238 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.2 MB]
Fetched 20.4 MB in 22s (919 kB/s)
Reading package lists...
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'r-bioc-biostrings' packaging is maintained in the 'Svn' version control system at:
svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-biostrings/trunk/
Need to get 12.7 MB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main r-bioc-biostrings 2.40.2-1 (dsc) [2248 B]
Get:2 http://172.17.0.1/private stretch-staging/main r-bioc-biostrings 2.40.2-1 (tar) [12.7 MB]
Get:3 http://172.17.0.1/private stretch-staging/main r-bioc-biostrings 2.40.2-1 (diff) [3992 B]
Fetched 12.7 MB in 1s (8693 kB/s)
Download complete and in download only mode
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-CHwTgY/apt_archive/sbuild-build-depends-core-dummy.deb'.
Warning: apt-key output should not be parsed (stdout is not a terminal)
OK
Get:1 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ Sources [214 B]
Get:5 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ Packages [526 B]
Ign:4 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ Sources
Ign:5 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ Packages
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Get:5 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ Packages [759 B]
Reading package lists...
W: file:///<<BUILDDIR>>/resolver-CHwTgY/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 packages were automatically installed and are no longer required:
fuse2fs libfuse2 manpages
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 16 not upgraded.
Need to get 0 B/762 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-CHwTgY/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [762 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 ... 12775 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 9), cdbs, r-base-dev, r-bioc-xvector (>= 0.12.0), r-bioc-iranges (>= 2.6.0), r-bioc-s4vectors (>= 0.10.1)
Filtered Build-Depends: debhelper (>= 9), cdbs, r-base-dev, r-bioc-xvector (>= 0.12.0), r-bioc-iranges (>= 2.6.0), r-bioc-s4vectors (>= 0.10.1)
dpkg-deb: building package 'sbuild-build-depends-r-bioc-biostrings-dummy' in '/<<BUILDDIR>>/resolver-WX3w0z/apt_archive/sbuild-build-depends-r-bioc-biostrings-dummy.deb'.
Warning: apt-key output should not be parsed (stdout is not a terminal)
OK
Get:1 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ Sources [264 B]
Get:5 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ Packages [582 B]
Ign:4 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ Sources
Ign:5 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ Packages
Get:4 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ Sources [382 B]
Get:5 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ Packages [879 B]
Reading package lists...
W: file:///<<BUILDDIR>>/resolver-WX3w0z/apt_archive/./Release.gpg: Signature by key 3493EC2B8E6DC280C121C60435506D9A48F77B2E uses weak digest algorithm (SHA1)
Reading package lists...
Install r-bioc-biostrings build dependencies (apt-based resolver)
-----------------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
fuse2fs libfuse2 manpages
Use 'apt autoremove' to remove them.
The following additional 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-5-base gettext gettext-base gfortran
gfortran-6 groff-base icu-devtools intltool-debian libarchive-zip-perl
libasan2 libblas-common libblas-dev libblas3 libbsd0 libbz2-dev libcairo2
libcroco3 libcurl3 libdatrie1 libexpat1 libffi6
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libgcc-5-dev
libgfortran-6-dev libgfortran3 libglib2.0-0 libgnutls30 libgraphite2-3
libgssapi-krb5-2 libharfbuzz0b libhogweed4 libice6 libicu-dev libicu57
libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3
libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3
libldap-2.4-2 liblzma-dev libmagic-mgc 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 libssh2-1 libssl1.0.2 libstdc++-5-dev 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 m4 man-db openssl po-debconf r-base-core r-base-dev
r-bioc-biocgenerics r-bioc-iranges r-bioc-s4vectors r-bioc-xvector ucf unzip
x11-common xdg-utils zip zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation devscripts dh-make gettext-doc libasprintf-dev libgettextpo-dev
gfortran-doc gfortran-6-doc libgfortran3-dbg libcoarrays-dev groff
liblapack-doc-man liblapack-doc gnutls-bin krb5-doc krb5-user icu-doc
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
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
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 gettext gettext-base gfortran gfortran-6
groff-base icu-devtools intltool-debian libarchive-zip-perl libasan2
libblas-common libblas-dev libblas3 libbsd0 libbz2-dev libcairo2 libcroco3
libcurl3 libdatrie1 libexpat1 libffi6 libfile-stripnondeterminism-perl
libfontconfig1 libfreetype6 libgcc-5-dev libgfortran-6-dev libgfortran3
libglib2.0-0 libgnutls30 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b
libhogweed4 libice6 libicu-dev libicu57 libjbig0 libjpeg-dev libjpeg62-turbo
libjpeg62-turbo-dev libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
liblapack-dev liblapack3 libldap-2.4-2 liblzma-dev libmagic-mgc 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 libssh2-1 libssl1.0.2 libstdc++-5-dev
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 m4 man-db openssl po-debconf r-base-core
r-base-dev r-bioc-biocgenerics r-bioc-iranges r-bioc-s4vectors
r-bioc-xvector sbuild-build-depends-r-bioc-biostrings-dummy ucf unzip
x11-common xdg-utils zip zlib1g-dev
The following packages will be upgraded:
gcc-5-base
1 upgraded, 130 newly installed, 0 to remove and 15 not upgraded.
Need to get 108 MB/108 MB of archives.
After this operation, 367 MB of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-WX3w0z/apt_archive ./ sbuild-build-depends-r-bioc-biostrings-dummy 0.invalid.0 [820 B]
Get:2 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-8 [1087 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf libbsd0 armhf 0.8.3-1 [89.0 kB]
Get:4 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.10 [177 kB]
Get:5 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf libexpat1 armhf 2.2.0-1 [61.7 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf libpng16-16 armhf 1.6.24-2 [262 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf libfreetype6 armhf 2.6.3-3+b1 [385 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf ucf all 3.0036 [70.2 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf fonts-dejavu-core all 2.37-1 [1068 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf fontconfig-config all 2.11.0-6.5 [271 kB]
Get:13 http://172.17.0.1/private stretch-staging/main armhf libfontconfig1 armhf 2.11.0-6.5 [313 kB]
Get:14 http://172.17.0.1/private stretch-staging/main armhf fontconfig armhf 2.11.0-6.5 [402 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf libjbig0 armhf 2.1-3.1 [27.5 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf libpaper1 armhf 1.1.24+nmu4 [21.4 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf libpcrecpp0v5 armhf 2:8.39-1 [149 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:19 http://172.17.0.1/private stretch-staging/main armhf libxdmcp6 armhf 1:1.1.2-1.1 [24.9 kB]
Get:20 http://172.17.0.1/private stretch-staging/main armhf libxcb1 armhf 1.11.1-1.1 [41.3 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf libx11-data all 2:1.6.3-1 [128 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf libx11-6 armhf 2:1.6.3-1 [678 kB]
Get:23 http://172.17.0.1/private stretch-staging/main armhf libxext6 armhf 2:1.3.3-1 [48.1 kB]
Get:24 http://172.17.0.1/private stretch-staging/main armhf libxrender1 armhf 1:0.9.9-2 [28.9 kB]
Get:25 http://172.17.0.1/private stretch-staging/main armhf libxft2 armhf 2.3.2-1 [48.3 kB]
Get:26 http://172.17.0.1/private stretch-staging/main armhf x11-common all 1:7.7+16 [251 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf libxss1 armhf 1:1.2.2-1 [16.8 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf gcc-5-base armhf 5.4.1-1 [173 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf libssl1.0.2 armhf 1.0.2h-1 [889 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf libmagic-mgc armhf 1:5.28-4 [210 kB]
Get:31 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.28-4 [104 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.28-4 [62.7 kB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf gettext-base armhf 0.19.8.1-1 [117 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf libnettle6 armhf 3.2-1 [202 kB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf libhogweed4 armhf 3.2-1 [126 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf libp11-kit0 armhf 0.23.2-4 [93.2 kB]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libtasn1-6 armhf 4.9-4 [44.9 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf libgnutls30 armhf 3.5.3-2 [728 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf libkeyutils1 armhf 1.5.9-9 [11.9 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf libkrb5support0 armhf 1.14.3+dfsg-1 [57.4 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf libk5crypto3 armhf 1.14.3+dfsg-1 [111 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf libkrb5-3 armhf 1.14.3+dfsg-1 [263 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libgssapi-krb5-2 armhf 1.14.3+dfsg-1 [131 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf libsasl2-modules-db armhf 2.1.26.dfsg1-15 [65.6 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf libsasl2-2 armhf 2.1.26.dfsg1-15 [96.7 kB]
Get:46 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:47 http://172.17.0.1/private stretch-staging/main armhf libicu57 armhf 57.1-2 [7404 kB]
Get:48 http://172.17.0.1/private stretch-staging/main armhf libxml2 armhf 2.9.4+dfsg1-1+b1 [803 kB]
Get:49 http://172.17.0.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:50 http://172.17.0.1/private stretch-staging/main armhf m4 armhf 1.4.17-5 [239 kB]
Get:51 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:52 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20160430.1 [72.6 kB]
Get:53 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-4 [735 kB]
Get:54 http://172.17.0.1/private stretch-staging/main armhf autopoint all 0.19.8.1-1 [433 kB]
Get:55 http://172.17.0.1/private stretch-staging/main armhf openssl armhf 1.0.2h-1 [667 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 0.4.142 [80.7 kB]
Get:58 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.48.1-2 [2546 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 libunistring0 armhf 0.9.6+really0.9.3-0.1 [252 kB]
Get:61 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.8.1-1 [1433 kB]
Get:62 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:63 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.19 [249 kB]
Get:64 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.59-1 [95.5 kB]
Get:65 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.022-1 [13.1 kB]
Get:66 http://172.17.0.1/private stretch-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:67 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.022-1 [7902 B]
Get:68 http://172.17.0.1/private stretch-staging/main armhf libtool all 2.4.6-0.1 [200 kB]
Get:69 http://172.17.0.1/private stretch-staging/main armhf dh-autoreconf all 12 [15.8 kB]
Get:70 http://172.17.0.1/private stretch-staging/main armhf debhelper all 9.20160814 [800 kB]
Get:71 http://172.17.0.1/private stretch-staging/main armhf libgfortran3 armhf 6.1.1-11+rpi1 [166 kB]
Get:72 http://172.17.0.1/private stretch-staging/main armhf libgfortran-6-dev armhf 6.1.1-11+rpi1 [200 kB]
Get:73 http://172.17.0.1/private stretch-staging/main armhf gfortran-6 armhf 6.1.1-11+rpi1 [27.9 MB]
Get:74 http://172.17.0.1/private stretch-staging/main armhf gfortran armhf 4:6.1.1-1 [1370 B]
Get:75 http://172.17.0.1/private stretch-staging/main armhf icu-devtools armhf 57.1-2 [156 kB]
Get:76 http://172.17.0.1/private stretch-staging/main armhf libasan2 armhf 5.4.1-1 [223 kB]
Get:77 http://172.17.0.1/private stretch-staging/main armhf libblas-common armhf 3.6.1-2 [13.9 kB]
Get:78 http://172.17.0.1/private stretch-staging/main armhf libblas3 armhf 3.6.1-2 [112 kB]
Get:79 http://172.17.0.1/private stretch-staging/main armhf libblas-dev armhf 3.6.1-2 [18.9 kB]
Get:80 http://172.17.0.1/private stretch-staging/main armhf libbz2-dev armhf 1.0.6-8 [27.8 kB]
Get:81 http://172.17.0.1/private stretch-staging/main armhf libpixman-1-0 armhf 0.33.6-1 [454 kB]
Get:82 http://172.17.0.1/private stretch-staging/main armhf libxcb-render0 armhf 1.11.1-1.1 [17.1 kB]
Get:83 http://172.17.0.1/private stretch-staging/main armhf libxcb-shm0 armhf 1.11.1-1.1 [11.6 kB]
Get:84 http://172.17.0.1/private stretch-staging/main armhf libcairo2 armhf 1.14.6-1+b1 [686 kB]
Get:85 http://172.17.0.1/private stretch-staging/main armhf libnghttp2-14 armhf 1.13.0-1 [68.7 kB]
Get:86 http://172.17.0.1/private stretch-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-1 [54.2 kB]
Get:87 http://172.17.0.1/private stretch-staging/main armhf libssh2-1 armhf 1.7.0-1 [125 kB]
Get:88 http://172.17.0.1/private stretch-staging/main armhf libcurl3 armhf 7.50.1-1 [251 kB]
Get:89 http://172.17.0.1/private stretch-staging/main armhf libdatrie1 armhf 0.2.10-2 [32.5 kB]
Get:90 http://172.17.0.1/private stretch-staging/main armhf libgcc-5-dev armhf 5.4.1-1 [445 kB]
Get:91 http://172.17.0.1/private stretch-staging/main armhf libgraphite2-3 armhf 1.3.8-1 [62.5 kB]
Get:92 http://172.17.0.1/private stretch-staging/main armhf libharfbuzz0b armhf 1.2.7-1+b1 [589 kB]
Get:93 http://172.17.0.1/private stretch-staging/main armhf libice6 armhf 2:1.0.9-1+b1 [51.9 kB]
Get:94 http://172.17.0.1/private stretch-staging/main armhf libstdc++-5-dev armhf 5.4.1-1 [1434 kB]
Get:95 http://172.17.0.1/private stretch-staging/main armhf libicu-dev armhf 57.1-2 [15.5 MB]
Get:96 http://172.17.0.1/private stretch-staging/main armhf libjpeg62-turbo armhf 1:1.5.0-1 [109 kB]
Get:97 http://172.17.0.1/private stretch-staging/main armhf libjpeg62-turbo-dev armhf 1:1.5.0-1 [181 kB]
Get:98 http://172.17.0.1/private stretch-staging/main armhf libjpeg-dev all 1:1.5.0-1 [54.8 kB]
Get:99 http://172.17.0.1/private stretch-staging/main armhf liblapack3 armhf 3.6.1-2 [1392 kB]
Get:100 http://172.17.0.1/private stretch-staging/main armhf liblapack-dev armhf 3.6.1-2 [1379 kB]
Get:101 http://172.17.0.1/private stretch-staging/main armhf liblzma-dev armhf 5.1.1alpha+20120614-2.1 [248 kB]
Get:102 http://172.17.0.1/private stretch-staging/main armhf libtinfo-dev armhf 6.0+20160625-1 [65.6 kB]
Get:103 http://172.17.0.1/private stretch-staging/main armhf libncurses5-dev armhf 6.0+20160625-1 [154 kB]
Get:104 http://172.17.0.1/private stretch-staging/main armhf libthai-data all 0.1.25-1 [165 kB]
Get:105 http://172.17.0.1/private stretch-staging/main armhf libthai0 armhf 0.1.25-1 [48.5 kB]
Get:106 http://172.17.0.1/private stretch-staging/main armhf libpango-1.0-0 armhf 1.40.1-1 [293 kB]
Get:107 http://172.17.0.1/private stretch-staging/main armhf libpangoft2-1.0-0 armhf 1.40.1-1 [231 kB]
Get:108 http://172.17.0.1/private stretch-staging/main armhf libpangocairo-1.0-0 armhf 1.40.1-1 [220 kB]
Get:109 http://172.17.0.1/private stretch-staging/main armhf libpaper-utils armhf 1.1.24+nmu4 [17.2 kB]
Get:110 http://172.17.0.1/private stretch-staging/main armhf libpcre16-3 armhf 2:8.39-1 [233 kB]
Get:111 http://172.17.0.1/private stretch-staging/main armhf libpcre32-3 armhf 2:8.39-1 [226 kB]
Get:112 http://172.17.0.1/private stretch-staging/main armhf libpcre3-dev armhf 2:8.39-1 [564 kB]
Get:113 http://172.17.0.1/private stretch-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
Get:114 http://172.17.0.1/private stretch-staging/main armhf libpng-dev armhf 1.6.24-2 [229 kB]
Get:115 http://172.17.0.1/private stretch-staging/main armhf libreadline6-dev armhf 6.3-8+b3 [105 kB]
Get:116 http://172.17.0.1/private stretch-staging/main armhf libreadline-dev armhf 6.3-8+b3 [958 B]
Get:117 http://172.17.0.1/private stretch-staging/main armhf libsm6 armhf 2:1.2.2-1+b1 [31.2 kB]
Get:118 http://172.17.0.1/private stretch-staging/main armhf libtcl8.6 armhf 8.6.6+dfsg-1 [861 kB]
Get:119 http://172.17.0.1/private stretch-staging/main armhf libtiff5 armhf 4.0.6-2 [203 kB]
Get:120 http://172.17.0.1/private stretch-staging/main armhf libtk8.6 armhf 8.6.6-1 [659 kB]
Get:121 http://172.17.0.1/private stretch-staging/main armhf libxt6 armhf 1:1.1.5-1 [155 kB]
Get:122 http://172.17.0.1/private stretch-staging/main armhf zip armhf 3.0-11 [212 kB]
Get:123 http://172.17.0.1/private stretch-staging/main armhf unzip armhf 6.0-20 [142 kB]
Get:124 http://172.17.0.1/private stretch-staging/main armhf xdg-utils all 1.1.1-1 [71.1 kB]
Get:125 http://172.17.0.1/private stretch-staging/main armhf r-base-core armhf 3.3.1-1+b1 [20.7 MB]
Get:126 http://172.17.0.1/private stretch-staging/main armhf r-base-dev all 3.3.1-1 [4306 B]
Get:127 http://172.17.0.1/private stretch-staging/main armhf r-bioc-biocgenerics all 0.18.0-1 [475 kB]
Get:128 http://172.17.0.1/private stretch-staging/main armhf r-bioc-s4vectors armhf 0.10.2-1 [917 kB]
Get:129 http://172.17.0.1/private stretch-staging/main armhf r-bioc-iranges armhf 2.6.1-1 [1418 kB]
Get:130 http://172.17.0.1/private stretch-staging/main armhf r-bioc-xvector armhf 0.12.0-2 [328 kB]
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Setting up unzip (6.0-20) ...
Setting up libsasl2-2:armhf (2.1.26.dfsg1-15) ...
Setting up libtinfo-dev:armhf (6.0+20160625-1) ...
Setting up libreadline6-dev:armhf (6.3-8+b3) ...
Setting up libdatrie1:armhf (0.2.10-2) ...
Setting up libtiff5:armhf (4.0.6-2) ...
Setting up gettext-base (0.19.8.1-1) ...
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Setting up m4 (1.4.17-5) ...
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Setting up libncurses5-dev:armhf (6.0+20160625-1) ...
Setting up libssl1.0.2:armhf (1.0.2h-1) ...
Setting up libpixman-1-0:armhf (0.33.6-1) ...
Setting up libblas3 (3.6.1-2) ...
update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode
Setting up libssh2-1:armhf (1.7.0-1) ...
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Setting up libthai-data (0.1.25-1) ...
Setting up libjpeg62-turbo-dev:armhf (1:1.5.0-1) ...
Setting up liblzma-dev:armhf (5.1.1alpha+20120614-2.1) ...
Setting up libxdmcp6:armhf (1:1.1.2-1.1) ...
Setting up libkeyutils1:armhf (1.5.9-9) ...
Setting up bsdmainutils (9.0.10) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up x11-common (1:7.7+16) ...
update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
Running in chroot, ignoring request.
All runlevel operations denied by policy
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Setting up xdg-utils (1.1.1-1) ...
Setting up ca-certificates (20160104) ...
Setting up libx11-data (2:1.6.3-1) ...
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Setting up libfile-stripnondeterminism-perl (0.022-1) ...
Setting up libpaper1:armhf (1.1.24+nmu4) ...
Creating config file /etc/papersize with new version
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Setting up libpcre3-dev:armhf (2:8.39-1) ...
Setting up fontconfig-config (2.11.0-6.5) ...
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Setting up libglib2.0-0:armhf (2.48.1-2) ...
No schema files found: doing nothing.
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Setting up libcroco3:armhf (0.6.11-1) ...
Setting up libjpeg-dev (1:1.5.0-1) ...
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Setting up automake (1:1.15-4) ...
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Setting up libice6:armhf (2:1.0.9-1+b1) ...
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Not building database; man-db/auto-update is not 'true'.
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Setting up libxcb1:armhf (1.11.1-1.1) ...
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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 libfontconfig1:armhf (2.11.0-6.5) ...
Setting up libsm6:armhf (2:1.2.2-1+b1) ...
Setting up libk5crypto3:armhf (1.14.3+dfsg-1) ...
Setting up libxcb-render0:armhf (1.11.1-1.1) ...
Setting up gettext (0.19.8.1-1) ...
Setting up libblas-dev (3.6.1-2) ...
update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode
Setting up libgnutls30:armhf (3.5.3-2) ...
Setting up libx11-6:armhf (2:1.6.3-1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-1) ...
Setting up libicu-dev (57.1-2) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up libldap-2.4-2:armhf (2.4.42+dfsg-2+rpi1+b2) ...
Setting up libxcb-shm0:armhf (1.11.1-1.1) ...
Setting up libxt6:armhf (1:1.1.5-1) ...
Setting up libxrender1:armhf (1:0.9.9-2) ...
Setting up libkrb5-3:armhf (1.14.3+dfsg-1) ...
Setting up libxft2:armhf (2.3.2-1) ...
Setting up fontconfig (2.11.0-6.5) ...
Regenerating fonts cache... done.
Setting up liblapack-dev (3.6.1-2) ...
update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
Setting up libxext6:armhf (2:1.3.3-1) ...
Setting up po-debconf (1.0.19) ...
Setting up libxss1:armhf (1:1.2.2-1) ...
Setting up libgssapi-krb5-2:armhf (1.14.3+dfsg-1) ...
Setting up libpango-1.0-0:armhf (1.40.1-1) ...
Setting up libcairo2:armhf (1.14.6-1+b1) ...
Setting up libcurl3:armhf (7.50.1-1) ...
Setting up libtk8.6:armhf (8.6.6-1) ...
Setting up libpangoft2-1.0-0:armhf (1.40.1-1) ...
Setting up libpangocairo-1.0-0:armhf (1.40.1-1) ...
Setting up r-base-core (3.3.1-1+b1) ...
Creating config file /etc/R/Renviron with new version
Setting up r-base-dev (3.3.1-1) ...
Setting up r-bioc-biocgenerics (0.18.0-1) ...
Setting up r-bioc-s4vectors (0.10.2-1) ...
Setting up r-bioc-iranges (2.6.1-1) ...
Setting up r-bioc-xvector (0.12.0-2) ...
Setting up dh-autoreconf (12) ...
Setting up dh-strip-nondeterminism (0.022-1) ...
Setting up debhelper (9.20160814) ...
Setting up sbuild-build-depends-r-bioc-biostrings-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.23-4) ...
Processing triggers for systemd (230-7+b1) ...
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 4.6.0-1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.26.1-1 dpkg-dev_1.18.10 g++-6_6.1.1-11+rpi1 gcc-6_6.1.1-11+rpi1 libc6-dev_2.23-4 libstdc++-5-dev_5.4.1-1 libstdc++-6-dev_6.1.1-11+rpi1 libstdc++6_6.1.1-11+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: adduser_3.115 apt_1.3~pre3 autoconf_2.69-10 automake_1:1.15-4 autopoint_0.19.8.1-1 autotools-dev_20160430.1 base-files_9.6+rpi1 base-passwd_3.5.39 bash_4.3-15 binutils_2.26.1-1 bsdmainutils_9.0.10 bsdutils_1:2.28-6 build-essential_12.2 bzip2_1.0.6-8 ca-certificates_20160104 cdbs_0.4.142 coreutils_8.25-2 cpio_2.11+dfsg-5 cpp_4:6.1.1-1 cpp-6_6.1.1-11+rpi1 dash_0.5.8-2.3 debconf_1.5.59 debfoster_2.7-2.1 debhelper_9.20160814 debianutils_4.8 dh-autoreconf_12 dh-strip-nondeterminism_0.022-1 diffutils_1:3.3-3 dmsetup_2:1.02.130-1 dpkg_1.18.10 dpkg-dev_1.18.10 e2fslibs_1.43.1-1 e2fsprogs_1.43.1-1 fakeroot_1.21-1 file_1:5.28-4 findutils_4.6.0+git+20160703-2 fontconfig_2.11.0-6.5 fontconfig-config_2.11.0-6.5 fonts-dejavu-core_2.37-1 fuse2fs_1.43.1-1 g++_4:6.1.1-1 g++-6_6.1.1-11+rpi1 gcc_4:6.1.1-1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-14 gcc-5-base_5.4.1-1 gcc-6_6.1.1-11+rpi1 gcc-6-base_6.1.1-11+rpi1 gettext_0.19.8.1-1 gettext-base_0.19.8.1-1 gfortran_4:6.1.1-1 gfortran-6_6.1.1-11+rpi1 gnupg_1.4.20-6 gpgv_1.4.20-6 grep_2.25-6 groff-base_1.22.3-8 gzip_1.6-5 hostname_3.18 icu-devtools_57.1-2 init_1.42 init-system-helpers_1.42 initscripts_2.88dsf-59.8 insserv_1.14.0-5.4 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-9+rpi1 kmod_22-1.1 libacl1_2.2.52-3 libapparmor1_2.10.95-4 libapt-pkg5.0_1.3~pre3 libarchive-zip-perl_1.59-1 libasan2_5.4.1-1 libasan3_6.1.1-11+rpi1 libatomic1_6.1.1-11+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.6.5-1 libaudit1_1:2.6.5-1 libblas-common_3.6.1-2 libblas-dev_3.6.1-2 libblas3_3.6.1-2 libblkid1_2.28-6 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8 libbz2-dev_1.0.6-8 libc-bin_2.23-4 libc-dev-bin_2.23-4 libc6_2.23-4 libc6-dev_2.23-4 libcairo2_1.14.6-1+b1 libcap-ng0_0.7.7-3 libcap2_1:2.25-1 libcap2-bin_1:2.25-1 libcc1-0_6.1.1-11+rpi1 libcomerr2_1.43.1-1 libcroco3_0.6.11-1 libcryptsetup4_2:1.7.0-2 libcurl3_7.50.1-1 libdatrie1_0.2.10-2 libdb5.3_5.3.28-12 libdbus-1-3_1.10.8-1 libdebconfclient0_0.215 libdevmapper1.02.1_2:1.02.130-1 libdpkg-perl_1.18.10 libdrm2_2.4.70-1 libexpat1_2.2.0-1 libfakeroot_1.21-1 libfdisk1_2.28-6 libffi6_3.2.1-4 libfile-stripnondeterminism-perl_0.022-1 libfontconfig1_2.11.0-6.5 libfreetype6_2.6.3-3+b1 libfuse2_2.9.7-1 libgc1c2_1:7.4.2-8 libgcc-5-dev_5.4.1-1 libgcc-6-dev_6.1.1-11+rpi1 libgcc1_1:6.1.1-11+rpi1 libgcrypt20_1.7.2-2 libgdbm3_1.8.3-14 libgfortran-6-dev_6.1.1-11+rpi1 libgfortran3_6.1.1-11+rpi1 libglib2.0-0_2.48.1-2 libgmp10_2:6.1.1+dfsg-1 libgnutls30_3.5.3-2 libgomp1_6.1.1-11+rpi1 libgpg-error0_1.24-1 libgraphite2-3_1.3.8-1 libgssapi-krb5-2_1.14.3+dfsg-1 libharfbuzz0b_1.2.7-1+b1 libhogweed4_3.2-1 libice6_2:1.0.9-1+b1 libicu-dev_57.1-2 libicu57_57.1-2 libidn11_1.33-1 libisl15_0.17.1-1 libjbig0_2.1-3.1 libjpeg-dev_1:1.5.0-1 libjpeg62-turbo_1:1.5.0-1 libjpeg62-turbo-dev_1:1.5.0-1 libk5crypto3_1.14.3+dfsg-1 libkeyutils1_1.5.9-9 libklibc_2.0.4-9+rpi1 libkmod2_22-1.1 libkrb5-3_1.14.3+dfsg-1 libkrb5support0_1.14.3+dfsg-1 liblapack-dev_3.6.1-2 liblapack3_3.6.1-2 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 libmagic-mgc_1:5.28-4 libmagic1_1:5.28-4 libmount1_2.28-6 libmpc3_1.0.3-1 libmpfr4_3.1.4-2 libncurses5_6.0+20160625-1 libncurses5-dev_6.0+20160625-1 libncursesw5_6.0+20160625-1 libnettle6_3.2-1 libnghttp2-14_1.13.0-1 libp11-kit0_0.23.2-4 libpam-modules_1.1.8-3.3 libpam-modules-bin_1.1.8-3.3 libpam-runtime_1.1.8-3.3 libpam0g_1.1.8-3.3 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_2:8.39-1 libpcre3_2:8.39-1 libpcre3-dev_2:8.39-1 libpcre32-3_2:8.39-1 libpcrecpp0v5_2:8.39-1 libperl5.22_5.22.2-3 libpipeline1_1.4.1-2 libpixman-1-0_0.33.6-1 libpng-dev_1.6.24-2 libpng12-0_1.2.54-6 libpng16-16_1.6.24-2 libprocps6_2:3.3.12-2 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_2.3.1-2 libselinux1_2.5-3 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_2.28-6 libss2_1.43.1-1 libssh2-1_1.7.0-1 libssl1.0.2_1.0.2h-1 libstdc++-5-dev_5.4.1-1 libstdc++-6-dev_6.1.1-11+rpi1 libstdc++6_6.1.1-11+rpi1 libsystemd0_230-7+b1 libtasn1-6_4.9-4 libtcl8.6_8.6.6+dfsg-1 libthai-data_0.1.25-1 libthai0_0.1.25-1 libtiff5_4.0.6-2 libtimedate-perl_2.3000-2 libtinfo-dev_6.0+20160625-1 libtinfo5_6.0+20160625-1 libtk8.6_8.6.6-1 libtool_2.4.6-0.1 libubsan0_6.1.1-11+rpi1 libudev1_230-7+b1 libunistring0_0.9.6+really0.9.3-0.1 libusb-0.1-4_2:0.1.12-30 libustr-1.0-1_1.0.4-5 libuuid1_2.28-6 libx11-6_2:1.6.3-1 libx11-data_2:1.6.3-1 libxau6_1:1.0.8-1 libxcb-render0_1.11.1-1.1 libxcb-shm0_1.11.1-1.1 libxcb1_1.11.1-1.1 libxdmcp6_1:1.1.2-1.1 libxext6_2:1.3.3-1 libxft2_2.3.2-1 libxml2_2.9.4+dfsg1-1+b1 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 login_1:4.2-3.1 lsb-base_9.20160629+rpi1 m4_1.4.17-5 make_4.1-9 makedev_2.3.1-93 man-db_2.7.5-1 manpages_4.07-1 mawk_1.3.3-17 mount_2.28-6 multiarch-support_2.23-4 nano_2.6.2-1 ncurses-base_6.0+20160625-1 ncurses-bin_6.0+20160625-1 openssl_1.0.2h-1 passwd_1:4.2-3.1 patch_2.7.5-1 perl_5.22.2-3 perl-base_5.22.2-3 perl-modules-5.22_5.22.2-3 po-debconf_1.0.19 procps_2:3.3.12-2 r-base-core_3.3.1-1+b1 r-base-dev_3.3.1-1 r-bioc-biocgenerics_0.18.0-1 r-bioc-iranges_2.6.1-1 r-bioc-s4vectors_0.10.2-1 r-bioc-xvector_0.12.0-2 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-biostrings-dummy_0.invalid.0 sed_4.2.2-7.1 sensible-utils_0.0.9 startpar_0.59-3.1 systemd_230-7+b1 systemd-sysv_230-7+b1 sysv-rc_2.88dsf-59.8 sysvinit-utils_2.88dsf-59.8 tar_1.29b-1 tzdata_2016f-1 ucf_3.0036 udev_230-7+b1 unzip_6.0-20 util-linux_2.28-6 x11-common_1:7.7+16 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 Tue Aug 16 13:28:16 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-biostrings_2.40.2-1.dsc
dpkg-source: info: extracting r-bioc-biostrings in r-bioc-biostrings-2.40.2
dpkg-source: info: unpacking r-bioc-biostrings_2.40.2.orig.tar.gz
dpkg-source: info: unpacking r-bioc-biostrings_2.40.2-1.debian.tar.xz
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-6f8026d7-8441-4078-b0ff-a9522af8fa64
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package r-bioc-biostrings
dpkg-buildpackage: info: source version 2.40.2-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build r-bioc-biostrings-2.40.2
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh_listpackages: -s/--same-arch is deprecated; please use -a/--arch instead
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
dh_listpackages: -s/--same-arch is deprecated; please use -a/--arch instead
test -x debian/rules
mkdir -p "."
fakeroot debian/rules binary-arch
dh_listpackages: -s/--same-arch is deprecated; please use -a/--arch instead
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 (>= 3.3.1-1), r-api-3" >> debian/r-bioc-biostrings.substvars
if test -f /usr/bin/xvfb-run; then \
xvfb-run -a \
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-biostrings/usr/lib/R/site-library --clean \
. \
"--built-timestamp=\"Tue, 16 Aug 2016 14:54:09 +0200\"" \
; \
else \
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-biostrings/usr/lib/R/site-library \
--clean . \
"--built-timestamp=\"Tue, 16 Aug 2016 14:54:09 +0200\"" \
; \
fi
* installing *source* package 'Biostrings' ...
** 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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c BAB_class.c -o BAB_class.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c BitMatrix.c -o BitMatrix.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c MIndex_class.c -o MIndex_class.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c PreprocessedTB_class.c -o PreprocessedTB_class.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_init_Biostrings.c -o R_init_Biostrings.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c RoSeqs_utils.c -o RoSeqs_utils.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c SparseList_utils.c -o SparseList_utils.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c XStringSetList_class.c -o XStringSetList_class.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c XStringSet_class.c -o XStringSet_class.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c XStringSet_io.c -o XStringSet_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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c XString_class.c -o XString_class.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c align_needwunsQS.c -o align_needwunsQS.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c align_pairwiseAlignment.c -o align_pairwiseAlignment.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c align_utils.c -o align_utils.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c find_palindromes.c -o find_palindromes.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gtestsim.c -o gtestsim.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c inject_code.c -o inject_code.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c letter_frequency.c -o letter_frequency.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lowlevel_matching.c -o lowlevel_matching.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_BOC.c -o match_BOC.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_BOC2.c -o match_BOC2.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_PWM.c -o match_PWM.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_pattern.c -o match_pattern.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_pattern_boyermoore.c -o match_pattern_boyermoore.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_pattern_indels.c -o match_pattern_indels.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_pattern_shiftor.c -o match_pattern_shiftor.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_pdict.c -o match_pdict.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_pdict_ACtree2.c -o match_pdict_ACtree2.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_pdict_Twobit.c -o match_pdict_Twobit.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_pdict_utils.c -o match_pdict_utils.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match_reporting.c -o match_reporting.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c matchprobes.c -o matchprobes.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pmatchPattern.c -o pmatchPattern.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c replaceAt.c -o replaceAt.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c replace_letter_at.c -o replace_letter_at.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c strutils.c -o strutils.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c translate.c -o translate.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unstrsplit_methods.c -o unstrsplit_methods.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wRX2PY/r-base-3.3.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xscat.c -o xscat.o
gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-z,relro -o Biostrings.so BAB_class.o BitMatrix.o IRanges_stubs.o MIndex_class.o PreprocessedTB_class.o R_init_Biostrings.o RoSeqs_utils.o S4Vectors_stubs.o SparseList_utils.o XStringSetList_class.o XStringSet_class.o XStringSet_io.o XString_class.o XVector_stubs.o align_needwunsQS.o align_pairwiseAlignment.o align_utils.o find_palindromes.o gtestsim.o inject_code.o letter_frequency.o lowlevel_matching.o match_BOC.o match_BOC2.o match_PWM.o match_pattern.o match_pattern_boyermoore.o match_pattern_indels.o match_pattern_shiftor.o match_pdict.o match_pdict_ACtree2.o match_pdict_Twobit.o match_pdict_utils.o match_reporting.o matchprobes.o pmatchPattern.o replaceAt.o replace_letter_at.o strutils.o translate.o unstrsplit_methods.o utils.o xscat.o -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-biostrings/usr/lib/R/site-library/Biostrings/libs
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for 'ls' from package 'base' in package 'Biostrings'
Creating a new generic function for 'offset' in package 'Biostrings'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Biostrings)
rm -vf /<<PKGBUILDDIR>>/debian/r-bioc-biostrings/usr/lib/R/site-library/R.css \
/<<PKGBUILDDIR>>/debian/r-bioc-biostrings/usr/lib/R/site-library/Biostrings/COPYING \
/<<PKGBUILDDIR>>/debian/r-bioc-biostrings/usr/lib/R/site-library/Biostrings/LICENSE.txt \
/<<PKGBUILDDIR>>/debian/r-bioc-biostrings/usr/lib/R/site-library/Biostrings/LICENSE
if test -f debian/overrides; then \
install -d /<<PKGBUILDDIR>>/debian/r-bioc-biostrings/usr/share/lintian/overrides ; \
install -m 0644 debian/overrides \
/<<PKGBUILDDIR>>/debian/r-bioc-biostrings/usr/share/lintian/overrides/r-bioc-biostrings; \
fi
Adding cdbs dependencies to debian/r-bioc-biostrings.substvars
dh_installdirs -pr-bioc-biostrings \
dh_installdocs -pr-bioc-biostrings ./NEWS ./TODO
dh_installexamples -pr-bioc-biostrings
dh_installman -pr-bioc-biostrings
dh_installinfo -pr-bioc-biostrings
dh_installmenu -pr-bioc-biostrings
dh_installcron -pr-bioc-biostrings
dh_systemd_enable -pr-bioc-biostrings
dh_installinit -pr-bioc-biostrings
dh_installdebconf -pr-bioc-biostrings
dh_installemacsen -pr-bioc-biostrings
dh_installcatalogs -pr-bioc-biostrings
dh_installpam -pr-bioc-biostrings
dh_installlogrotate -pr-bioc-biostrings
dh_installlogcheck -pr-bioc-biostrings
dh_installchangelogs -pr-bioc-biostrings ./CHANGES
dh_installudev -pr-bioc-biostrings
dh_lintian -pr-bioc-biostrings
dh_bugfiles -pr-bioc-biostrings
dh_install -pr-bioc-biostrings
dh_systemd_start -pr-bioc-biostrings
dh_link -pr-bioc-biostrings
dh_installmime -pr-bioc-biostrings
dh_installgsettings -pr-bioc-biostrings
dh_strip -pr-bioc-biostrings
dh_strip_nondeterminism -pr-bioc-biostrings
dh_compress -pr-bioc-biostrings
dh_fixperms -pr-bioc-biostrings
dh_makeshlibs -pr-bioc-biostrings
dh_installdeb -pr-bioc-biostrings
dh_perl -pr-bioc-biostrings
dh_shlibdeps -pr-bioc-biostrings
dh_gencontrol -pr-bioc-biostrings
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-biostrings
dh_builddeb -pr-bioc-biostrings
dpkg-deb: building package 'r-bioc-biostrings-dbgsym' in '../r-bioc-biostrings-dbgsym_2.40.2-1_armhf.deb'.
dpkg-deb: building package 'r-bioc-biostrings' in '../r-bioc-biostrings_2.40.2-1_armhf.deb'.
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../r-bioc-biostrings_2.40.2-1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build r-bioc-biostrings-2.40.2
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 20160822-1639
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
r-bioc-biostrings_2.40.2-1_armhf.changes:
-----------------------------------------
Format: 1.8
Date: Tue, 16 Aug 2016 14:54:09 +0200
Source: r-bioc-biostrings
Binary: r-bioc-biostrings
Architecture: armhf
Version: 2.40.2-1
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
r-bioc-biostrings - GNU R string objects representing biological sequences
Changes:
r-bioc-biostrings (2.40.2-1) unstable; urgency=medium
.
* New upstream version
* Versioned Build-Depends: r-bioc-s4vectors (>= 0.10.1)
Checksums-Sha1:
33ea0a460b8ecd4b123260014eeea829aad2f189 208240 r-bioc-biostrings-dbgsym_2.40.2-1_armhf.deb
d20cf5bec2d4c2f01834633d0c647e13e3f683ce 13522702 r-bioc-biostrings_2.40.2-1_armhf.deb
Checksums-Sha256:
1b1598e380c8f4176f453cd4eef5dd1b2161de8b25721aae5005e4c07ed5fddd 208240 r-bioc-biostrings-dbgsym_2.40.2-1_armhf.deb
b34c05360dfaa9c247eaaa88e0f793d18ddd21687675b3d6f64f35f5d9f3c46a 13522702 r-bioc-biostrings_2.40.2-1_armhf.deb
Files:
26b5386990c94fecb3ccc1efd91a9e02 208240 debug extra r-bioc-biostrings-dbgsym_2.40.2-1_armhf.deb
209b25dec8f60a878fc487b4dbbe3ee4 13522702 gnu-r optional r-bioc-biostrings_2.40.2-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
r-bioc-biostrings-dbgsym_2.40.2-1_armhf.deb
-------------------------------------------
new debian package, version 2.0.
size 208240 bytes: control archive=507 bytes.
486 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: r-bioc-biostrings-dbgsym
Source: r-bioc-biostrings
Version: 2.40.2-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 251
Depends: r-bioc-biostrings (= 2.40.2-1)
Section: debug
Priority: extra
Homepage: http://bioconductor.org/packages/release/bioc/html/Biostrings.html
Description: Debug symbols for r-bioc-biostrings
Auto-Built-Package: debug-symbols
Build-Ids: 55eb7a8be5035b838db240d04a1455d086ca45b1
drwxr-xr-x root/root 0 2016-08-16 12:54 ./
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/lib/
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/lib/debug/.build-id/55/
-rw-r--r-- root/root 246176 2016-08-16 12:54 ./usr/lib/debug/.build-id/55/eb7a8be5035b838db240d04a1455d086ca45b1.debug
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/share/
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-08-16 12:54 ./usr/share/doc/r-bioc-biostrings-dbgsym -> r-bioc-biostrings
r-bioc-biostrings_2.40.2-1_armhf.deb
------------------------------------
new debian package, version 2.0.
size 13522702 bytes: control archive=3121 bytes.
656 bytes, 13 lines control
7307 bytes, 83 lines md5sums
Package: r-bioc-biostrings
Version: 2.40.2-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 14413
Depends: r-base-core (>= 3.3.1-1), r-api-3, libc6 (>= 2.7), r-bioc-xvector (>= 0.12.0), r-bioc-iranges (>= 2.6.0), r-bioc-s4vectors (>= 0.10.1)
Section: gnu-r
Priority: optional
Homepage: http://bioconductor.org/packages/release/bioc/html/Biostrings.html
Description: GNU R string objects representing biological sequences
Memory efficient string containers, string matching algorithms, and other
utilities, for fast manipulation of large biological sequences or set of
sequences.
drwxr-xr-x root/root 0 2016-08-16 12:54 ./
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/lib/
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/lib/R/
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/lib/R/site-library/
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/
-rw-r--r-- root/root 2473 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/DESCRIPTION
-rw-r--r-- root/root 5295 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/INDEX
drwxr-xr-x root/root 0 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/Meta/
-rw-r--r-- root/root 7763 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/Meta/Rd.rds
-rw-r--r-- root/root 320 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/Meta/data.rds
-rw-r--r-- root/root 7976 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/Meta/hsearch.rds
-rw-r--r-- root/root 6324 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/Meta/links.rds
-rw-r--r-- root/root 2347 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/Meta/nsInfo.rds
-rw-r--r-- root/root 1856 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/Meta/package.rds
-rw-r--r-- root/root 453 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/Meta/vignette.rds
-rw-r--r-- root/root 11185 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/NAMESPACE
-rw-r--r-- root/root 17344 2016-08-16 12:54 ./usr/lib/R/site-library/Biostrings/NEWS
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Build Architecture: armhf
Build-Space: 43000
Build-Time: 217
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 897
Job: r-bioc-biostrings_2.40.2-1
Machine Architecture: armhf
Package: r-bioc-biostrings
Package-Time: 1160
Source-Version: 2.40.2-1
Space: 43000
Status: successful
Version: 2.40.2-1
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Finished at 20160822-1639
Build needed 00:19:20, 43000k disc space