r-bioc-rsamtools →
2.2.1-1 →
armhf → 2019-11-18 05:37:13
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-01
+==============================================================================+
| r-bioc-rsamtools 2.2.1-1 (armhf) Mon, 18 Nov 2019 05:11:26 +0000 |
+==============================================================================+
Package: r-bioc-rsamtools
Version: 2.2.1-1
Source Version: 2.2.1-1
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/bullseye-staging-armhf-sbuild-611cb66f-70c2-48bd-9069-abd44192cb87' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [11.5 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.9 MB]
Fetched 24.4 MB in 28s (878 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-rsamtools' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/r-pkg-team/r-bioc-rsamtools.git
Please use:
git clone https://salsa.debian.org/r-pkg-team/r-bioc-rsamtools.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 3042 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main r-bioc-rsamtools 2.2.1-1 (dsc) [2446 B]
Get:2 http://172.17.0.1/private bullseye-staging/main r-bioc-rsamtools 2.2.1-1 (tar) [3034 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main r-bioc-rsamtools 2.2.1-1 (diff) [6056 B]
Fetched 3042 kB in 0s (8787 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/r-bioc-rsamtools-CxRl8A/r-bioc-rsamtools-2.2.1' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-rsamtools-CxRl8A' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-VHVkqu/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-VHVkqu/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-VHVkqu/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Packages [431 B]
Fetched 2107 B in 1s (2713 B/s)
Reading package lists...
W: copy:///<<BUILDDIR>>/resolver-VHVkqu/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 35506D9A48F77B2E
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:
libpam-cap netbase
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 2 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12227 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), dh-r, r-base-dev, r-bioc-genomeinfodb (>= 1.1.3), r-bioc-genomicranges (>= 1.31.8), r-bioc-biostrings (>= 2.47.6), r-bioc-biocgenerics (>= 0.25.1), r-bioc-s4vectors (>= 0.17.25), r-bioc-iranges (>= 2.13.12), r-bioc-xvector (>= 0.19.7), r-bioc-zlibbioc, r-cran-bitops, r-bioc-biocparallel, r-bioc-rhtslib (>= 1.17.7), libcurl4-openssl-dev
Filtered Build-Depends: debhelper-compat (= 12), dh-r, r-base-dev, r-bioc-genomeinfodb (>= 1.1.3), r-bioc-genomicranges (>= 1.31.8), r-bioc-biostrings (>= 2.47.6), r-bioc-biocgenerics (>= 0.25.1), r-bioc-s4vectors (>= 0.17.25), r-bioc-iranges (>= 2.13.12), r-bioc-xvector (>= 0.19.7), r-bioc-zlibbioc, r-cran-bitops, r-bioc-biocparallel, r-bioc-rhtslib (>= 1.17.7), libcurl4-openssl-dev
dpkg-deb: building package 'sbuild-build-depends-r-bioc-rsamtools-dummy' in '/<<BUILDDIR>>/resolver-VHVkqu/apt_archive/sbuild-build-depends-r-bioc-rsamtools-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-r-bioc-rsamtools-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Sources [650 B]
Get:5 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Packages [729 B]
Fetched 2712 B in 1s (3465 B/s)
Reading package lists...
W: copy:///<<BUILDDIR>>/resolver-VHVkqu/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 35506D9A48F77B2E
Reading package lists...
Install r-bioc-rsamtools 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:
libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils ca-certificates
dctrl-tools debhelper dh-autoreconf dh-r dh-strip-nondeterminism dwz file
fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
gfortran-9 groff-base icu-devtools intltool-debian libarchive-zip-perl
libblas-dev libblas3 libbrotli1 libbsd0 libbz2-dev libcairo2 libcroco3
libcurl4 libcurl4-openssl-dev libdatrie1 libdebhelper-perl libelf1 libexpat1
libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1
libfreetype6 libfribidi0 libgfortran-9-dev libgfortran5 libglib2.0-0
libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libice6 libicu-dev libicu63
libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3
libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblzma-dev
libmagic-mgc libmagic1 libncurses-dev libncurses5-dev libncurses6
libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
libpaper-utils libpaper1 libpcre16-3 libpcre2-16-0 libpcre2-32-0
libpcre2-dev libpcre2-posix0 libpcre3-dev libpcre32-3 libpcrecpp0v5
libpipeline1 libpixman-1-0 libpng-dev libpng16-16 libpsl5 libreadline-dev
librtmp1 libsigsegv2 libsm6 libssh2-1 libssl1.1 libsub-override-perl
libswitch-perl libtcl8.6 libthai-data libthai0 libtiff5 libtinfo5 libtk8.6
libtool libuchardet0 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0
libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxmuu1 libxrender1
libxss1 libxt6 m4 man-db openssl pkg-config po-debconf r-base-core
r-base-dev r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings
r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges
r-bioc-iranges r-bioc-rhtslib r-bioc-s4vectors r-bioc-xvector
r-bioc-zlibbioc r-cran-bitops r-cran-formatr r-cran-futile.logger
r-cran-futile.options r-cran-lambda.r r-cran-rcurl r-cran-snow
sensible-utils ucf unzip x11-common xauth xdg-utils zip zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation debtags dh-make gettext-doc libasprintf-dev libgettextpo-dev
gfortran-doc gfortran-9-doc libgfortran5-dbg libcoarrays-dev groff
liblapack-doc libcurl4-doc libidn11-dev libkrb5-dev libldap2-dev librtmp-dev
libssh2-1-dev libssl-dev krb5-doc krb5-user icu-doc liblzma-doc ncurses-doc
readline-doc tcl8.6 tk8.6 libtool-doc gcj-jdk m4-doc apparmor less
www-browser libmail-box-perl elpa-ess r-doc-info | r-doc-pdf r-mathlib
r-base-html texlive-base texlive-latex-base texlive-plain-generic
texlive-fonts-recommended texlive-fonts-extra texlive-extra-utils
texlive-latex-recommended texlive-latex-extra texinfo r-bioc-biobase
r-bioc-delayedarray r-bioc-rsamtools r-bioc-annotationdbi r-bioc-affy
r-bioc-deseq2 r-bioc-annotate r-cran-foreach r-cran-bbmisc
r-bioc-variantannotation r-bioc-genomicalignments r-bioc-shortread
r-cran-codetools r-cran-knitr r-cran-data.table r-bioc-bsgenome
r-bioc-genomicfeatures r-cran-matrix r-bioc-rtracklayer r-bioc-gviz
r-bioc-annotationhub r-bioc-edger r-bioc-summarizedexperiment r-bioc-graph
r-cran-shiny r-cran-rmarkdown r-cran-jsonlite r-cran-xml r-cran-rmpi
r-cran-rsprng r-cran-rlecuyer
Recommended packages:
devscripts curl | wget | lynx bzip2-doc libarchive-cpio-perl libglib2.0-data
shared-mime-info xdg-user-dirs krb5-locales libgpm2 libpng-tools
publicsuffix libltdl-dev libmail-sendmail-perl r-recommended r-doc-html
r-cran-runit r-cran-batchjobs r-cran-doparallel r-bioc-rsamtools
r-cran-batchtools r-cran-rmpi r-cran-digest r-bioc-annotate
r-bioc-summarizedexperiment r-cran-testit r-cran-codetools r-cran-survival
r-cran-testthat 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
dctrl-tools debhelper dh-autoreconf dh-r dh-strip-nondeterminism dwz file
fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
gfortran-9 groff-base icu-devtools intltool-debian libarchive-zip-perl
libblas-dev libblas3 libbrotli1 libbsd0 libbz2-dev libcairo2 libcroco3
libcurl4 libcurl4-openssl-dev libdatrie1 libdebhelper-perl libelf1 libexpat1
libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1
libfreetype6 libfribidi0 libgfortran-9-dev libgfortran5 libglib2.0-0
libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libice6 libicu-dev libicu63
libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libk5crypto3
libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblzma-dev
libmagic-mgc libmagic1 libncurses-dev libncurses5-dev libncurses6
libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
libpaper-utils libpaper1 libpcre16-3 libpcre2-16-0 libpcre2-32-0
libpcre2-dev libpcre2-posix0 libpcre3-dev libpcre32-3 libpcrecpp0v5
libpipeline1 libpixman-1-0 libpng-dev libpng16-16 libpsl5 libreadline-dev
librtmp1 libsigsegv2 libsm6 libssh2-1 libssl1.1 libsub-override-perl
libswitch-perl libtcl8.6 libthai-data libthai0 libtiff5 libtinfo5 libtk8.6
libtool libuchardet0 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0
libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxmuu1 libxrender1
libxss1 libxt6 m4 man-db openssl pkg-config po-debconf r-base-core
r-base-dev r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings
r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges
r-bioc-iranges r-bioc-rhtslib r-bioc-s4vectors r-bioc-xvector
r-bioc-zlibbioc r-cran-bitops r-cran-formatr r-cran-futile.logger
r-cran-futile.options r-cran-lambda.r r-cran-rcurl r-cran-snow
sbuild-build-depends-r-bioc-rsamtools-dummy sensible-utils ucf unzip
x11-common xauth xdg-utils zip zlib1g-dev
0 upgraded, 151 newly installed, 0 to remove and 2 not upgraded.
Need to get 122 MB of archives.
After this operation, 293 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-VHVkqu/apt_archive ./ sbuild-build-depends-r-bioc-rsamtools-dummy 0.invalid.0 [1016 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.1+20191019-1 [316 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-3 [782 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.1-2 [26.6 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.0-1 [1261 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12 [15.8 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.37-6 [253 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.37-6 [111 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.37-6 [66.2 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-9 [117 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libswitch-perl all 2.17-2 [20.5 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf ucf all 3.0038+nmu1 [69.0 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-9 [434 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1d-2 [1268 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf openssl armhf 1.1.1d-2 [806 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf ca-certificates all 20190110 [157 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf dctrl-tools armhf 2.24-3 [94.2 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-11 [547 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.67-1 [104 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.6.1-1 [23.5 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.6.1-1 [14.4 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-2 [136 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 12.7.1 [173 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.62.2-3 [1137 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-2 [7974 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.4+dfsg1-7+b2 [571 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.1+20191019-1 [79.5 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-9 [1219 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 12.7.1 [997 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf zip armhf 3.0-11 [212 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf unzip armhf 6.0-25 [152 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libpaper1 armhf 1.1.28 [20.5 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf libpaper-utils armhf 1.1.28 [17.7 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf xdg-utils all 1.1.3-1 [73.3 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libblas3 armhf 3.8.0-8 [107 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.9-1 [71.5 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libpng16-16 armhf 1.6.37-1 [274 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf libfreetype6 armhf 2.10.1-2 [330 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf fonts-dejavu-core all 2.37-1 [1068 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf fontconfig-config all 2.13.1-2 [280 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libfontconfig1 armhf 2.13.1-2 [327 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libpixman-1-0 armhf 0.36.0-1 [458 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libxau6 armhf 1:1.0.8-1+b2 [19.1 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libxcb1 armhf 1.13.1-2 [132 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf libx11-data all 2:1.6.8-1 [298 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libx11-6 armhf 2:1.6.8-1 [691 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libxcb-render0 armhf 1.13.1-2 [108 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libxcb-shm0 armhf 1.13.1-2 [99.3 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libxext6 armhf 2:1.3.3-1+b2 [47.8 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf libxrender1 armhf 1:0.9.10-1 [29.9 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libcairo2 armhf 1.16.0-4 [599 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.7-5 [257 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6-6 [14.0 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.17-6+b1 [61.5 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.17-6+b1 [112 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.17-6+b1 [316 kB]
Get:72 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.17-6+b1 [134 kB]
Get:73 http://172.17.0.1/private bullseye-staging/main armhf libnghttp2-14 armhf 1.39.2-1 [71.3 kB]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf libpsl5 armhf 0.20.2-2 [52.6 kB]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b1 [54.3 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf libssh2-1 armhf 1.8.0-2.1 [126 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf libcurl4 armhf 7.66.0-1+b1 [297 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo armhf 1:1.5.2-2+b1 [110 kB]
Get:79 http://172.17.0.1/private bullseye-staging/main armhf libgfortran5 armhf 9.2.1-17+rpi1 [231 kB]
Get:80 http://172.17.0.1/private bullseye-staging/main armhf liblapack3 armhf 3.8.0-8 [1568 kB]
Get:81 http://172.17.0.1/private bullseye-staging/main armhf fontconfig armhf 2.13.1-2 [404 kB]
Get:82 http://172.17.0.1/private bullseye-staging/main armhf libfribidi0 armhf 1.0.7-1.1 [62.8 kB]
Get:83 http://172.17.0.1/private bullseye-staging/main armhf libthai-data all 0.1.28-3 [170 kB]
Get:84 http://172.17.0.1/private bullseye-staging/main armhf libdatrie1 armhf 0.2.12-3+b1 [36.4 kB]
Get:85 http://172.17.0.1/private bullseye-staging/main armhf libthai0 armhf 0.1.28-3 [51.0 kB]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf libpango-1.0-0 armhf 1.42.4-7+b1 [168 kB]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf libgraphite2-3 armhf 1.3.13-11 [70.1 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf libharfbuzz0b armhf 2.6.4-1+rpi1 [1308 kB]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf libpangoft2-1.0-0 armhf 1.42.4-7+b1 [62.2 kB]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf libpangocairo-1.0-0 armhf 1.42.4-7+b1 [51.9 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf libtcl8.6 armhf 8.6.9+dfsg-2 [878 kB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf libjbig0 armhf 2.1-3.1+b2 [27.6 kB]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf libwebp6 armhf 0.6.1-2 [228 kB]
Get:94 http://172.17.0.1/private bullseye-staging/main armhf libtiff5 armhf 4.1.0-1 [249 kB]
Get:95 http://172.17.0.1/private bullseye-staging/main armhf libxft2 armhf 2.3.2-2 [49.3 kB]
Get:96 http://172.17.0.1/private bullseye-staging/main armhf x11-common all 1:7.7+20 [252 kB]
Get:97 http://172.17.0.1/private bullseye-staging/main armhf libxss1 armhf 1:1.2.3-1 [17.3 kB]
Get:98 http://172.17.0.1/private bullseye-staging/main armhf libtk8.6 armhf 8.6.9-2 [664 kB]
Get:99 http://172.17.0.1/private bullseye-staging/main armhf libice6 armhf 2:1.0.9-2 [51.6 kB]
Get:100 http://172.17.0.1/private bullseye-staging/main armhf libsm6 armhf 2:1.2.3-1 [32.9 kB]
Get:101 http://172.17.0.1/private bullseye-staging/main armhf libxt6 armhf 1:1.1.5-1+b3 [156 kB]
Get:102 http://172.17.0.1/private bullseye-staging/main armhf r-base-core armhf 3.6.1-7 [24.3 MB]
Get:103 http://172.17.0.1/private bullseye-staging/main armhf libgfortran-9-dev armhf 9.2.1-17+rpi1 [279 kB]
Get:104 http://172.17.0.1/private bullseye-staging/main armhf gfortran-9 armhf 9.2.1-17+rpi1 [7451 kB]
Get:105 http://172.17.0.1/private bullseye-staging/main armhf gfortran armhf 4:9.2.1-3+rpi1 [1432 B]
Get:106 http://172.17.0.1/private bullseye-staging/main armhf libblas-dev armhf 3.8.0-8 [112 kB]
Get:107 http://172.17.0.1/private bullseye-staging/main armhf liblapack-dev armhf 3.8.0-8 [2839 kB]
Get:108 http://172.17.0.1/private bullseye-staging/main armhf libncurses-dev armhf 6.1+20191019-1 [284 kB]
Get:109 http://172.17.0.1/private bullseye-staging/main armhf libncurses5-dev armhf 6.1+20191019-1 [940 B]
Get:110 http://172.17.0.1/private bullseye-staging/main armhf libreadline-dev armhf 8.0-3 [114 kB]
Get:111 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo-dev armhf 1:1.5.2-2+b1 [179 kB]
Get:112 http://172.17.0.1/private bullseye-staging/main armhf libjpeg-dev all 1:1.5.2-2 [57.5 kB]
Get:113 http://172.17.0.1/private bullseye-staging/main armhf libpcre2-16-0 armhf 10.32-5 [175 kB]
Get:114 http://172.17.0.1/private bullseye-staging/main armhf libpcre2-32-0 armhf 10.32-5 [168 kB]
Get:115 http://172.17.0.1/private bullseye-staging/main armhf libpcre2-posix0 armhf 10.32-5 [38.3 kB]
Get:116 http://172.17.0.1/private bullseye-staging/main armhf libpcre2-dev armhf 10.32-5 [572 kB]
Get:117 http://172.17.0.1/private bullseye-staging/main armhf libpcre16-3 armhf 2:8.39-12 [234 kB]
Get:118 http://172.17.0.1/private bullseye-staging/main armhf libpcre32-3 armhf 2:8.39-12 [227 kB]
Get:119 http://172.17.0.1/private bullseye-staging/main armhf libpcrecpp0v5 armhf 2:8.39-12 [150 kB]
Get:120 http://172.17.0.1/private bullseye-staging/main armhf libpcre3-dev armhf 2:8.39-12 [564 kB]
Get:121 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
Get:122 http://172.17.0.1/private bullseye-staging/main armhf libpng-dev armhf 1.6.37-1 [275 kB]
Get:123 http://172.17.0.1/private bullseye-staging/main armhf libbz2-dev armhf 1.0.8-2 [27.7 kB]
Get:124 http://172.17.0.1/private bullseye-staging/main armhf liblzma-dev armhf 5.2.4-1 [203 kB]
Get:125 http://172.17.0.1/private bullseye-staging/main armhf icu-devtools armhf 63.2-2 [163 kB]
Get:126 http://172.17.0.1/private bullseye-staging/main armhf libicu-dev armhf 63.2-2 [8846 kB]
Get:127 http://172.17.0.1/private bullseye-staging/main armhf libxmuu1 armhf 2:1.1.2-2+b3 [23.4 kB]
Get:128 http://172.17.0.1/private bullseye-staging/main armhf xauth armhf 1:1.0.10-1 [36.4 kB]
Get:129 http://172.17.0.1/private bullseye-staging/main armhf pkg-config armhf 0.29-6 [59.8 kB]
Get:130 http://172.17.0.1/private bullseye-staging/main armhf r-base-dev all 3.6.1-7 [4488 B]
Get:131 http://172.17.0.1/private bullseye-staging/main armhf libfile-which-perl all 1.23-1 [16.6 kB]
Get:132 http://172.17.0.1/private bullseye-staging/main armhf dh-r all 20190917 [36.2 kB]
Get:133 http://172.17.0.1/private bullseye-staging/main armhf libcurl4-openssl-dev armhf 7.66.0-1+b1 [370 kB]
Get:134 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-biocgenerics all 0.32.0-1 [639 kB]
Get:135 http://172.17.0.1/private bullseye-staging/main armhf r-cran-formatr all 1.7-1 [152 kB]
Get:136 http://172.17.0.1/private bullseye-staging/main armhf r-cran-lambda.r all 1.2.4-1 [119 kB]
Get:137 http://172.17.0.1/private bullseye-staging/main armhf r-cran-futile.options all 1.0.1-2 [19.8 kB]
Get:138 http://172.17.0.1/private bullseye-staging/main armhf r-cran-futile.logger all 1.4.3-3 [102 kB]
Get:139 http://172.17.0.1/private bullseye-staging/main armhf r-cran-snow all 1:0.4.3-1 [108 kB]
Get:140 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-biocparallel armhf 1.20.0-1 [1070 kB]
Get:141 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-s4vectors armhf 0.24.0-1 [1944 kB]
Get:142 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-iranges armhf 2.20.0-1 [2217 kB]
Get:143 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-zlibbioc all 1.32.0+dfsg-1 [8780 B]
Get:144 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-xvector armhf 0.26.0-1 [610 kB]
Get:145 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-biostrings armhf 2.54.0-1 [14.1 MB]
Get:146 http://172.17.0.1/private bullseye-staging/main armhf r-cran-bitops armhf 1.0-6-4 [23.9 kB]
Get:147 http://172.17.0.1/private bullseye-staging/main armhf r-cran-rcurl armhf 1.95-4.12-1 [722 kB]
Get:148 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-genomeinfodbdata all 1.2.2-1 [10.2 MB]
Get:149 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-genomeinfodb all 1.22.0-1 [3687 kB]
Get:150 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-genomicranges armhf 1.38.0+dfsg-1 [1828 kB]
Get:151 http://172.17.0.1/private bullseye-staging/main armhf r-bioc-rhtslib armhf 1.18.0+dfsg-1 [964 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 122 MB in 13s (9644 kB/s)
Selecting previously unselected package libbsd0:armhf.
(Reading database ... 12227 files and directories currently installed.)
Preparing to unpack .../000-libbsd0_0.10.0-1_armhf.deb ...
Unpacking libbsd0:armhf (0.10.0-1) ...
Selecting previously unselected package libtinfo5:armhf.
Preparing to unpack .../001-libtinfo5_6.1+20191019-1_armhf.deb ...
Unpacking libtinfo5:armhf (6.1+20191019-1) ...
Selecting previously unselected package bsdmainutils.
Preparing to unpack .../002-bsdmainutils_11.1.2_armhf.deb ...
Unpacking bsdmainutils (11.1.2) ...
Selecting previously unselected package libuchardet0:armhf.
Preparing to unpack .../003-libuchardet0_0.0.6-3_armhf.deb ...
Unpacking libuchardet0:armhf (0.0.6-3) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../004-groff-base_1.22.4-3_armhf.deb ...
Unpacking groff-base (1.22.4-3) ...
Selecting previously unselected package libpipeline1:armhf.
Preparing to unpack .../005-libpipeline1_1.5.1-2_armhf.deb ...
Unpacking libpipeline1:armhf (1.5.1-2) ...
Selecting previously unselected package man-db.
Preparing to unpack .../006-man-db_2.9.0-1_armhf.deb ...
Unpacking man-db (2.9.0-1) ...
Selecting previously unselected package sensible-utils.
Preparing to unpack .../007-sensible-utils_0.0.12_all.deb ...
Unpacking sensible-utils (0.0.12) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../008-libmagic-mgc_1%3a5.37-6_armhf.deb ...
Unpacking libmagic-mgc (1:5.37-6) ...
Selecting previously unselected package libmagic1:armhf.
Preparing to unpack .../009-libmagic1_1%3a5.37-6_armhf.deb ...
Unpacking libmagic1:armhf (1:5.37-6) ...
Selecting previously unselected package file.
Preparing to unpack .../010-file_1%3a5.37-6_armhf.deb ...
Unpacking file (1:5.37-6) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../011-gettext-base_0.19.8.1-9_armhf.deb ...
Unpacking gettext-base (0.19.8.1-9) ...
Selecting previously unselected package libswitch-perl.
Preparing to unpack .../012-libswitch-perl_2.17-2_all.deb ...
Unpacking libswitch-perl (2.17-2) ...
Selecting previously unselected package ucf.
Preparing to unpack .../013-ucf_3.0038+nmu1_all.deb ...
Moving old data out of the way
Unpacking ucf (3.0038+nmu1) ...
Selecting previously unselected package libsigsegv2:armhf.
Preparing to unpack .../014-libsigsegv2_2.12-2_armhf.deb ...
Unpacking libsigsegv2:armhf (2.12-2) ...
Selecting previously unselected package m4.
Preparing to unpack .../015-m4_1.4.18-4_armhf.deb ...
Unpacking m4 (1.4.18-4) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../016-autoconf_2.69-11_all.deb ...
Unpacking autoconf (2.69-11) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../017-autotools-dev_20180224.1_all.deb ...
Unpacking autotools-dev (20180224.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../018-automake_1%3a1.16.1-4_all.deb ...
Unpacking automake (1:1.16.1-4) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../019-autopoint_0.19.8.1-9_all.deb ...
Unpacking autopoint (0.19.8.1-9) ...
Selecting previously unselected package libssl1.1:armhf.
Preparing to unpack .../020-libssl1.1_1.1.1d-2_armhf.deb ...
Unpacking libssl1.1:armhf (1.1.1d-2) ...
Selecting previously unselected package openssl.
Preparing to unpack .../021-openssl_1.1.1d-2_armhf.deb ...
Unpacking openssl (1.1.1d-2) ...
Selecting previously unselected package ca-certificates.
Preparing to unpack .../022-ca-certificates_20190110_all.deb ...
Unpacking ca-certificates (20190110) ...
Selecting previously unselected package dctrl-tools.
Preparing to unpack .../023-dctrl-tools_2.24-3_armhf.deb ...
Unpacking dctrl-tools (2.24-3) ...
Selecting previously unselected package libtool.
Preparing to unpack .../024-libtool_2.4.6-11_all.deb ...
Unpacking libtool (2.4.6-11) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../025-dh-autoreconf_19_all.deb ...
Unpacking dh-autoreconf (19) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../026-libarchive-zip-perl_1.67-1_all.deb ...
Unpacking libarchive-zip-perl (1.67-1) ...
Selecting previously unselected package libsub-override-perl.
Preparing to unpack .../027-libsub-override-perl_0.09-2_all.deb ...
Unpacking libsub-override-perl (0.09-2) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../028-libfile-stripnondeterminism-perl_1.6.1-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.6.1-1) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../029-dh-strip-nondeterminism_1.6.1-1_all.deb ...
Unpacking dh-strip-nondeterminism (1.6.1-1) ...
Selecting previously unselected package libelf1:armhf.
Preparing to unpack .../030-libelf1_0.176-1.1_armhf.deb ...
Unpacking libelf1:armhf (0.176-1.1) ...
Selecting previously unselected package dwz.
Preparing to unpack .../031-dwz_0.13-2_armhf.deb ...
Unpacking dwz (0.13-2) ...
Selecting previously unselected package libdebhelper-perl.
Preparing to unpack .../032-libdebhelper-perl_12.7.1_all.deb ...
Unpacking libdebhelper-perl (12.7.1) ...
Selecting previously unselected package libglib2.0-0:armhf.
Preparing to unpack .../033-libglib2.0-0_2.62.2-3_armhf.deb ...
Unpacking libglib2.0-0:armhf (2.62.2-3) ...
Selecting previously unselected package libicu63:armhf.
Preparing to unpack .../034-libicu63_63.2-2_armhf.deb ...
Unpacking libicu63:armhf (63.2-2) ...
Selecting previously unselected package libxml2:armhf.
Preparing to unpack .../035-libxml2_2.9.4+dfsg1-7+b2_armhf.deb ...
Unpacking libxml2:armhf (2.9.4+dfsg1-7+b2) ...
Selecting previously unselected package libcroco3:armhf.
Preparing to unpack .../036-libcroco3_0.6.13-1_armhf.deb ...
Unpacking libcroco3:armhf (0.6.13-1) ...
Selecting previously unselected package libncurses6:armhf.
Preparing to unpack .../037-libncurses6_6.1+20191019-1_armhf.deb ...
Unpacking libncurses6:armhf (6.1+20191019-1) ...
Selecting previously unselected package gettext.
Preparing to unpack .../038-gettext_0.19.8.1-9_armhf.deb ...
Unpacking gettext (0.19.8.1-9) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../039-intltool-debian_0.35.0+20060710.5_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.5) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../040-po-debconf_1.0.21_all.deb ...
Unpacking po-debconf (1.0.21) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../041-debhelper_12.7.1_all.deb ...
Unpacking debhelper (12.7.1) ...
Selecting previously unselected package zip.
Preparing to unpack .../042-zip_3.0-11_armhf.deb ...
Unpacking zip (3.0-11) ...
Selecting previously unselected package unzip.
Preparing to unpack .../043-unzip_6.0-25_armhf.deb ...
Unpacking unzip (6.0-25) ...
Selecting previously unselected package libpaper1:armhf.
Preparing to unpack .../044-libpaper1_1.1.28_armhf.deb ...
Unpacking libpaper1:armhf (1.1.28) ...
Selecting previously unselected package libpaper-utils.
Preparing to unpack .../045-libpaper-utils_1.1.28_armhf.deb ...
Unpacking libpaper-utils (1.1.28) ...
Selecting previously unselected package xdg-utils.
Preparing to unpack .../046-xdg-utils_1.1.3-1_all.deb ...
Unpacking xdg-utils (1.1.3-1) ...
Selecting previously unselected package libblas3:armhf.
Preparing to unpack .../047-libblas3_3.8.0-8_armhf.deb ...
Unpacking libblas3:armhf (3.8.0-8) ...
Selecting previously unselected package libexpat1:armhf.
Preparing to unpack .../048-libexpat1_2.2.9-1_armhf.deb ...
Unpacking libexpat1:armhf (2.2.9-1) ...
Selecting previously unselected package libpng16-16:armhf.
Preparing to unpack .../049-libpng16-16_1.6.37-1_armhf.deb ...
Unpacking libpng16-16:armhf (1.6.37-1) ...
Selecting previously unselected package libfreetype6:armhf.
Preparing to unpack .../050-libfreetype6_2.10.1-2_armhf.deb ...
Unpacking libfreetype6:armhf (2.10.1-2) ...
Selecting previously unselected package fonts-dejavu-core.
Preparing to unpack .../051-fonts-dejavu-core_2.37-1_all.deb ...
Unpacking fonts-dejavu-core (2.37-1) ...
Selecting previously unselected package fontconfig-config.
Preparing to unpack .../052-fontconfig-config_2.13.1-2_all.deb ...
Unpacking fontconfig-config (2.13.1-2) ...
Selecting previously unselected package libfontconfig1:armhf.
Preparing to unpack .../053-libfontconfig1_2.13.1-2_armhf.deb ...
Unpacking libfontconfig1:armhf (2.13.1-2) ...
Selecting previously unselected package libpixman-1-0:armhf.
Preparing to unpack .../054-libpixman-1-0_0.36.0-1_armhf.deb ...
Unpacking libpixman-1-0:armhf (0.36.0-1) ...
Selecting previously unselected package libxau6:armhf.
Preparing to unpack .../055-libxau6_1%3a1.0.8-1+b2_armhf.deb ...
Unpacking libxau6:armhf (1:1.0.8-1+b2) ...
Selecting previously unselected package libxdmcp6:armhf.
Preparing to unpack .../056-libxdmcp6_1%3a1.1.2-3_armhf.deb ...
Unpacking libxdmcp6:armhf (1:1.1.2-3) ...
Selecting previously unselected package libxcb1:armhf.
Preparing to unpack .../057-libxcb1_1.13.1-2_armhf.deb ...
Unpacking libxcb1:armhf (1.13.1-2) ...
Selecting previously unselected package libx11-data.
Preparing to unpack .../058-libx11-data_2%3a1.6.8-1_all.deb ...
Unpacking libx11-data (2:1.6.8-1) ...
Selecting previously unselected package libx11-6:armhf.
Preparing to unpack .../059-libx11-6_2%3a1.6.8-1_armhf.deb ...
Unpacking libx11-6:armhf (2:1.6.8-1) ...
Selecting previously unselected package libxcb-render0:armhf.
Preparing to unpack .../060-libxcb-render0_1.13.1-2_armhf.deb ...
Unpacking libxcb-render0:armhf (1.13.1-2) ...
Selecting previously unselected package libxcb-shm0:armhf.
Preparing to unpack .../061-libxcb-shm0_1.13.1-2_armhf.deb ...
Unpacking libxcb-shm0:armhf (1.13.1-2) ...
Selecting previously unselected package libxext6:armhf.
Preparing to unpack .../062-libxext6_2%3a1.3.3-1+b2_armhf.deb ...
Unpacking libxext6:armhf (2:1.3.3-1+b2) ...
Selecting previously unselected package libxrender1:armhf.
Preparing to unpack .../063-libxrender1_1%3a0.9.10-1_armhf.deb ...
Unpacking libxrender1:armhf (1:0.9.10-1) ...
Selecting previously unselected package libcairo2:armhf.
Preparing to unpack .../064-libcairo2_1.16.0-4_armhf.deb ...
Unpacking libcairo2:armhf (1.16.0-4) ...
Selecting previously unselected package libbrotli1:armhf.
Preparing to unpack .../065-libbrotli1_1.0.7-5_armhf.deb ...
Unpacking libbrotli1:armhf (1.0.7-5) ...
Selecting previously unselected package libkeyutils1:armhf.
Preparing to unpack .../066-libkeyutils1_1.6-6_armhf.deb ...
Unpacking libkeyutils1:armhf (1.6-6) ...
Selecting previously unselected package libkrb5support0:armhf.
Preparing to unpack .../067-libkrb5support0_1.17-6+b1_armhf.deb ...
Unpacking libkrb5support0:armhf (1.17-6+b1) ...
Selecting previously unselected package libk5crypto3:armhf.
Preparing to unpack .../068-libk5crypto3_1.17-6+b1_armhf.deb ...
Unpacking libk5crypto3:armhf (1.17-6+b1) ...
Selecting previously unselected package libkrb5-3:armhf.
Preparing to unpack .../069-libkrb5-3_1.17-6+b1_armhf.deb ...
Unpacking libkrb5-3:armhf (1.17-6+b1) ...
Selecting previously unselected package libgssapi-krb5-2:armhf.
Preparing to unpack .../070-libgssapi-krb5-2_1.17-6+b1_armhf.deb ...
Unpacking libgssapi-krb5-2:armhf (1.17-6+b1) ...
Selecting previously unselected package libnghttp2-14:armhf.
Preparing to unpack .../071-libnghttp2-14_1.39.2-1_armhf.deb ...
Unpacking libnghttp2-14:armhf (1.39.2-1) ...
Selecting previously unselected package libpsl5:armhf.
Preparing to unpack .../072-libpsl5_0.20.2-2_armhf.deb ...
Unpacking libpsl5:armhf (0.20.2-2) ...
Selecting previously unselected package librtmp1:armhf.
Preparing to unpack .../073-librtmp1_2.4+20151223.gitfa8646d.1-2+b1_armhf.deb ...
Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b1) ...
Selecting previously unselected package libssh2-1:armhf.
Preparing to unpack .../074-libssh2-1_1.8.0-2.1_armhf.deb ...
Unpacking libssh2-1:armhf (1.8.0-2.1) ...
Selecting previously unselected package libcurl4:armhf.
Preparing to unpack .../075-libcurl4_7.66.0-1+b1_armhf.deb ...
Unpacking libcurl4:armhf (7.66.0-1+b1) ...
Selecting previously unselected package libjpeg62-turbo:armhf.
Preparing to unpack .../076-libjpeg62-turbo_1%3a1.5.2-2+b1_armhf.deb ...
Unpacking libjpeg62-turbo:armhf (1:1.5.2-2+b1) ...
Selecting previously unselected package libgfortran5:armhf.
Preparing to unpack .../077-libgfortran5_9.2.1-17+rpi1_armhf.deb ...
Unpacking libgfortran5:armhf (9.2.1-17+rpi1) ...
Selecting previously unselected package liblapack3:armhf.
Preparing to unpack .../078-liblapack3_3.8.0-8_armhf.deb ...
Unpacking liblapack3:armhf (3.8.0-8) ...
Selecting previously unselected package fontconfig.
Preparing to unpack .../079-fontconfig_2.13.1-2_armhf.deb ...
Unpacking fontconfig (2.13.1-2) ...
Selecting previously unselected package libfribidi0:armhf.
Preparing to unpack .../080-libfribidi0_1.0.7-1.1_armhf.deb ...
Unpacking libfribidi0:armhf (1.0.7-1.1) ...
Selecting previously unselected package libthai-data.
Preparing to unpack .../081-libthai-data_0.1.28-3_all.deb ...
Unpacking libthai-data (0.1.28-3) ...
Selecting previously unselected package libdatrie1:armhf.
Preparing to unpack .../082-libdatrie1_0.2.12-3+b1_armhf.deb ...
Unpacking libdatrie1:armhf (0.2.12-3+b1) ...
Selecting previously unselected package libthai0:armhf.
Preparing to unpack .../083-libthai0_0.1.28-3_armhf.deb ...
Unpacking libthai0:armhf (0.1.28-3) ...
Selecting previously unselected package libpango-1.0-0:armhf.
Preparing to unpack .../084-libpango-1.0-0_1.42.4-7+b1_armhf.deb ...
Unpacking libpango-1.0-0:armhf (1.42.4-7+b1) ...
Selecting previously unselected package libgraphite2-3:armhf.
Preparing to unpack .../085-libgraphite2-3_1.3.13-11_armhf.deb ...
Unpacking libgraphite2-3:armhf (1.3.13-11) ...
Selecting previously unselected package libharfbuzz0b:armhf.
Preparing to unpack .../086-libharfbuzz0b_2.6.4-1+rpi1_armhf.deb ...
Unpacking libharfbuzz0b:armhf (2.6.4-1+rpi1) ...
Selecting previously unselected package libpangoft2-1.0-0:armhf.
Preparing to unpack .../087-libpangoft2-1.0-0_1.42.4-7+b1_armhf.deb ...
Unpacking libpangoft2-1.0-0:armhf (1.42.4-7+b1) ...
Selecting previously unselected package libpangocairo-1.0-0:armhf.
Preparing to unpack .../088-libpangocairo-1.0-0_1.42.4-7+b1_armhf.deb ...
Unpacking libpangocairo-1.0-0:armhf (1.42.4-7+b1) ...
Selecting previously unselected package libtcl8.6:armhf.
Preparing to unpack .../089-libtcl8.6_8.6.9+dfsg-2_armhf.deb ...
Unpacking libtcl8.6:armhf (8.6.9+dfsg-2) ...
Selecting previously unselected package libjbig0:armhf.
Preparing to unpack .../090-libjbig0_2.1-3.1+b2_armhf.deb ...
Unpacking libjbig0:armhf (2.1-3.1+b2) ...
Selecting previously unselected package libwebp6:armhf.
Preparing to unpack .../091-libwebp6_0.6.1-2_armhf.deb ...
Unpacking libwebp6:armhf (0.6.1-2) ...
Selecting previously unselected package libtiff5:armhf.
Preparing to unpack .../092-libtiff5_4.1.0-1_armhf.deb ...
Unpacking libtiff5:armhf (4.1.0-1) ...
Selecting previously unselected package libxft2:armhf.
Preparing to unpack .../093-libxft2_2.3.2-2_armhf.deb ...
Unpacking libxft2:armhf (2.3.2-2) ...
Selecting previously unselected package x11-common.
Preparing to unpack .../094-x11-common_1%3a7.7+20_all.deb ...
Unpacking x11-common (1:7.7+20) ...
Selecting previously unselected package libxss1:armhf.
Preparing to unpack .../095-libxss1_1%3a1.2.3-1_armhf.deb ...
Unpacking libxss1:armhf (1:1.2.3-1) ...
Selecting previously unselected package libtk8.6:armhf.
Preparing to unpack .../096-libtk8.6_8.6.9-2_armhf.deb ...
Unpacking libtk8.6:armhf (8.6.9-2) ...
Selecting previously unselected package libice6:armhf.
Preparing to unpack .../097-libice6_2%3a1.0.9-2_armhf.deb ...
Unpacking libice6:armhf (2:1.0.9-2) ...
Selecting previously unselected package libsm6:armhf.
Preparing to unpack .../098-libsm6_2%3a1.2.3-1_armhf.deb ...
Unpacking libsm6:armhf (2:1.2.3-1) ...
Selecting previously unselected package libxt6:armhf.
Preparing to unpack .../099-libxt6_1%3a1.1.5-1+b3_armhf.deb ...
Unpacking libxt6:armhf (1:1.1.5-1+b3) ...
Selecting previously unselected package r-base-core.
Preparing to unpack .../100-r-base-core_3.6.1-7_armhf.deb ...
Unpacking r-base-core (3.6.1-7) ...
Selecting previously unselected package libgfortran-9-dev:armhf.
Preparing to unpack .../101-libgfortran-9-dev_9.2.1-17+rpi1_armhf.deb ...
Unpacking libgfortran-9-dev:armhf (9.2.1-17+rpi1) ...
Selecting previously unselected package gfortran-9.
Preparing to unpack .../102-gfortran-9_9.2.1-17+rpi1_armhf.deb ...
Unpacking gfortran-9 (9.2.1-17+rpi1) ...
Selecting previously unselected package gfortran.
Preparing to unpack .../103-gfortran_4%3a9.2.1-3+rpi1_armhf.deb ...
Unpacking gfortran (4:9.2.1-3+rpi1) ...
Selecting previously unselected package libblas-dev:armhf.
Preparing to unpack .../104-libblas-dev_3.8.0-8_armhf.deb ...
Unpacking libblas-dev:armhf (3.8.0-8) ...
Selecting previously unselected package liblapack-dev:armhf.
Preparing to unpack .../105-liblapack-dev_3.8.0-8_armhf.deb ...
Unpacking liblapack-dev:armhf (3.8.0-8) ...
Selecting previously unselected package libncurses-dev:armhf.
Preparing to unpack .../106-libncurses-dev_6.1+20191019-1_armhf.deb ...
Unpacking libncurses-dev:armhf (6.1+20191019-1) ...
Selecting previously unselected package libncurses5-dev:armhf.
Preparing to unpack .../107-libncurses5-dev_6.1+20191019-1_armhf.deb ...
Unpacking libncurses5-dev:armhf (6.1+20191019-1) ...
Selecting previously unselected package libreadline-dev:armhf.
Preparing to unpack .../108-libreadline-dev_8.0-3_armhf.deb ...
Unpacking libreadline-dev:armhf (8.0-3) ...
Selecting previously unselected package libjpeg62-turbo-dev:armhf.
Preparing to unpack .../109-libjpeg62-turbo-dev_1%3a1.5.2-2+b1_armhf.deb ...
Unpacking libjpeg62-turbo-dev:armhf (1:1.5.2-2+b1) ...
Selecting previously unselected package libjpeg-dev.
Preparing to unpack .../110-libjpeg-dev_1%3a1.5.2-2_all.deb ...
Unpacking libjpeg-dev (1:1.5.2-2) ...
Selecting previously unselected package libpcre2-16-0:armhf.
Preparing to unpack .../111-libpcre2-16-0_10.32-5_armhf.deb ...
Unpacking libpcre2-16-0:armhf (10.32-5) ...
Selecting previously unselected package libpcre2-32-0:armhf.
Preparing to unpack .../112-libpcre2-32-0_10.32-5_armhf.deb ...
Unpacking libpcre2-32-0:armhf (10.32-5) ...
Selecting previously unselected package libpcre2-posix0:armhf.
Preparing to unpack .../113-libpcre2-posix0_10.32-5_armhf.deb ...
Unpacking libpcre2-posix0:armhf (10.32-5) ...
Selecting previously unselected package libpcre2-dev:armhf.
Preparing to unpack .../114-libpcre2-dev_10.32-5_armhf.deb ...
Unpacking libpcre2-dev:armhf (10.32-5) ...
Selecting previously unselected package libpcre16-3:armhf.
Preparing to unpack .../115-libpcre16-3_2%3a8.39-12_armhf.deb ...
Unpacking libpcre16-3:armhf (2:8.39-12) ...
Selecting previously unselected package libpcre32-3:armhf.
Preparing to unpack .../116-libpcre32-3_2%3a8.39-12_armhf.deb ...
Unpacking libpcre32-3:armhf (2:8.39-12) ...
Selecting previously unselected package libpcrecpp0v5:armhf.
Preparing to unpack .../117-libpcrecpp0v5_2%3a8.39-12_armhf.deb ...
Unpacking libpcrecpp0v5:armhf (2:8.39-12) ...
Selecting previously unselected package libpcre3-dev:armhf.
Preparing to unpack .../118-libpcre3-dev_2%3a8.39-12_armhf.deb ...
Unpacking libpcre3-dev:armhf (2:8.39-12) ...
Selecting previously unselected package zlib1g-dev:armhf.
Preparing to unpack .../119-zlib1g-dev_1%3a1.2.11.dfsg-1_armhf.deb ...
Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Selecting previously unselected package libpng-dev:armhf.
Preparing to unpack .../120-libpng-dev_1.6.37-1_armhf.deb ...
Unpacking libpng-dev:armhf (1.6.37-1) ...
Selecting previously unselected package libbz2-dev:armhf.
Preparing to unpack .../121-libbz2-dev_1.0.8-2_armhf.deb ...
Unpacking libbz2-dev:armhf (1.0.8-2) ...
Selecting previously unselected package liblzma-dev:armhf.
Preparing to unpack .../122-liblzma-dev_5.2.4-1_armhf.deb ...
Unpacking liblzma-dev:armhf (5.2.4-1) ...
Selecting previously unselected package icu-devtools.
Preparing to unpack .../123-icu-devtools_63.2-2_armhf.deb ...
Unpacking icu-devtools (63.2-2) ...
Selecting previously unselected package libicu-dev:armhf.
Preparing to unpack .../124-libicu-dev_63.2-2_armhf.deb ...
Unpacking libicu-dev:armhf (63.2-2) ...
Selecting previously unselected package libxmuu1:armhf.
Preparing to unpack .../125-libxmuu1_2%3a1.1.2-2+b3_armhf.deb ...
Unpacking libxmuu1:armhf (2:1.1.2-2+b3) ...
Selecting previously unselected package xauth.
Preparing to unpack .../126-xauth_1%3a1.0.10-1_armhf.deb ...
Unpacking xauth (1:1.0.10-1) ...
Selecting previously unselected package pkg-config.
Preparing to unpack .../127-pkg-config_0.29-6_armhf.deb ...
Unpacking pkg-config (0.29-6) ...
Selecting previously unselected package r-base-dev.
Preparing to unpack .../128-r-base-dev_3.6.1-7_all.deb ...
Unpacking r-base-dev (3.6.1-7) ...
Selecting previously unselected package libfile-which-perl.
Preparing to unpack .../129-libfile-which-perl_1.23-1_all.deb ...
Unpacking libfile-which-perl (1.23-1) ...
Selecting previously unselected package dh-r.
Preparing to unpack .../130-dh-r_20190917_all.deb ...
Unpacking dh-r (20190917) ...
Selecting previously unselected package libcurl4-openssl-dev:armhf.
Preparing to unpack .../131-libcurl4-openssl-dev_7.66.0-1+b1_armhf.deb ...
Unpacking libcurl4-openssl-dev:armhf (7.66.0-1+b1) ...
Selecting previously unselected package r-bioc-biocgenerics.
Preparing to unpack .../132-r-bioc-biocgenerics_0.32.0-1_all.deb ...
Unpacking r-bioc-biocgenerics (0.32.0-1) ...
Selecting previously unselected package r-cran-formatr.
Preparing to unpack .../133-r-cran-formatr_1.7-1_all.deb ...
Unpacking r-cran-formatr (1.7-1) ...
Selecting previously unselected package r-cran-lambda.r.
Preparing to unpack .../134-r-cran-lambda.r_1.2.4-1_all.deb ...
Unpacking r-cran-lambda.r (1.2.4-1) ...
Selecting previously unselected package r-cran-futile.options.
Preparing to unpack .../135-r-cran-futile.options_1.0.1-2_all.deb ...
Unpacking r-cran-futile.options (1.0.1-2) ...
Selecting previously unselected package r-cran-futile.logger.
Preparing to unpack .../136-r-cran-futile.logger_1.4.3-3_all.deb ...
Unpacking r-cran-futile.logger (1.4.3-3) ...
Selecting previously unselected package r-cran-snow.
Preparing to unpack .../137-r-cran-snow_1%3a0.4.3-1_all.deb ...
Unpacking r-cran-snow (1:0.4.3-1) ...
Selecting previously unselected package r-bioc-biocparallel.
Preparing to unpack .../138-r-bioc-biocparallel_1.20.0-1_armhf.deb ...
Unpacking r-bioc-biocparallel (1.20.0-1) ...
Selecting previously unselected package r-bioc-s4vectors.
Preparing to unpack .../139-r-bioc-s4vectors_0.24.0-1_armhf.deb ...
Unpacking r-bioc-s4vectors (0.24.0-1) ...
Selecting previously unselected package r-bioc-iranges.
Preparing to unpack .../140-r-bioc-iranges_2.20.0-1_armhf.deb ...
Unpacking r-bioc-iranges (2.20.0-1) ...
Selecting previously unselected package r-bioc-zlibbioc.
Preparing to unpack .../141-r-bioc-zlibbioc_1.32.0+dfsg-1_all.deb ...
Unpacking r-bioc-zlibbioc (1.32.0+dfsg-1) ...
Selecting previously unselected package r-bioc-xvector.
Preparing to unpack .../142-r-bioc-xvector_0.26.0-1_armhf.deb ...
Unpacking r-bioc-xvector (0.26.0-1) ...
Selecting previously unselected package r-bioc-biostrings.
Preparing to unpack .../143-r-bioc-biostrings_2.54.0-1_armhf.deb ...
Unpacking r-bioc-biostrings (2.54.0-1) ...
Selecting previously unselected package r-cran-bitops.
Preparing to unpack .../144-r-cran-bitops_1.0-6-4_armhf.deb ...
Unpacking r-cran-bitops (1.0-6-4) ...
Selecting previously unselected package r-cran-rcurl.
Preparing to unpack .../145-r-cran-rcurl_1.95-4.12-1_armhf.deb ...
Unpacking r-cran-rcurl (1.95-4.12-1) ...
Selecting previously unselected package r-bioc-genomeinfodbdata.
Preparing to unpack .../146-r-bioc-genomeinfodbdata_1.2.2-1_all.deb ...
Unpacking r-bioc-genomeinfodbdata (1.2.2-1) ...
Selecting previously unselected package r-bioc-genomeinfodb.
Preparing to unpack .../147-r-bioc-genomeinfodb_1.22.0-1_all.deb ...
Unpacking r-bioc-genomeinfodb (1.22.0-1) ...
Selecting previously unselected package r-bioc-genomicranges.
Preparing to unpack .../148-r-bioc-genomicranges_1.38.0+dfsg-1_armhf.deb ...
Unpacking r-bioc-genomicranges (1.38.0+dfsg-1) ...
Selecting previously unselected package r-bioc-rhtslib.
Preparing to unpack .../149-r-bioc-rhtslib_1.18.0+dfsg-1_armhf.deb ...
Unpacking r-bioc-rhtslib (1.18.0+dfsg-1) ...
Selecting previously unselected package sbuild-build-depends-r-bioc-rsamtools-dummy.
Preparing to unpack .../150-sbuild-build-depends-r-bioc-rsamtools-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-r-bioc-rsamtools-dummy (0.invalid.0) ...
Setting up libexpat1:armhf (2.2.9-1) ...
Setting up libpcrecpp0v5:armhf (2:8.39-12) ...
Setting up libpipeline1:armhf (1.5.1-2) ...
Setting up libgraphite2-3:armhf (1.3.13-11) ...
Setting up libpixman-1-0:armhf (0.36.0-1) ...
Setting up libfile-which-perl (1.23-1) ...
Setting up libxau6:armhf (1:1.0.8-1+b2) ...
Setting up libkeyutils1:armhf (1.6-6) ...
Setting up libpsl5:armhf (0.20.2-2) ...
Setting up libpcre16-3:armhf (2:8.39-12) ...
Setting up libdatrie1:armhf (0.2.12-3+b1) ...
Setting up libmagic-mgc (1:5.37-6) ...
Setting up libarchive-zip-perl (1.67-1) ...
Setting up libglib2.0-0:armhf (2.62.2-3) ...
No schema files found: doing nothing.
Setting up libssl1.1:armhf (1.1.1d-2) ...
Setting up unzip (6.0-25) ...
Setting up libdebhelper-perl (12.7.1) ...
Setting up libbrotli1:armhf (1.0.7-5) ...
Setting up x11-common (1:7.7+20) ...
update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
invoke-rc.d: could not determine current runlevel
invoke-rc.d: policy-rc.d denied execution of start.
Setting up libnghttp2-14:armhf (1.39.2-1) ...
Setting up libmagic1:armhf (1:5.37-6) ...
Setting up gettext-base (0.19.8.1-9) ...
Setting up file (1:5.37-6) ...
Setting up libjbig0:armhf (2.1-3.1+b2) ...
Setting up libpcre2-16-0:armhf (10.32-5) ...
Setting up libicu63:armhf (63.2-2) ...
Setting up libkrb5support0:armhf (1.17-6+b1) ...
Setting up zip (3.0-11) ...
Setting up autotools-dev (20180224.1) ...
Setting up libpcre2-32-0:armhf (10.32-5) ...
Setting up libblas3:armhf (3.8.0-8) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode
Setting up libjpeg62-turbo:armhf (1:1.5.2-2+b1) ...
Setting up libpcre2-posix0:armhf (10.32-5) ...
Setting up libswitch-perl (2.17-2) ...
Setting up libx11-data (2:1.6.8-1) ...
Setting up libjpeg62-turbo-dev:armhf (1:1.5.2-2+b1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b1) ...
Setting up libncurses6:armhf (6.1+20191019-1) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up libfribidi0:armhf (1.0.7-1.1) ...
Setting up libpng16-16:armhf (1.6.37-1) ...
Setting up libpcre32-3:armhf (2:8.39-12) ...
Setting up libtcl8.6:armhf (8.6.9+dfsg-2) ...
Setting up autopoint (0.19.8.1-9) ...
Setting up libwebp6:armhf (0.6.1-2) ...
Setting up icu-devtools (63.2-2) ...
Setting up pkg-config (0.29-6) ...
Setting up fonts-dejavu-core (2.37-1) ...
Setting up libk5crypto3:armhf (1.17-6+b1) ...
Setting up libgfortran5:armhf (9.2.1-17+rpi1) ...
Setting up liblzma-dev:armhf (5.2.4-1) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Setting up sensible-utils (0.0.12) ...
Setting up libuchardet0:armhf (0.0.6-3) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libthai-data (0.1.28-3) ...
Setting up libssh2-1:armhf (1.8.0-2.1) ...
Setting up libkrb5-3:armhf (1.17-6+b1) ...
Setting up libtiff5:armhf (4.1.0-1) ...
Setting up openssl (1.1.1d-2) ...
Setting up libbsd0:armhf (0.10.0-1) ...
Setting up libtinfo5:armhf (6.1+20191019-1) ...
Setting up libelf1:armhf (0.176-1.1) ...
Setting up libicu-dev:armhf (63.2-2) ...
Setting up libxml2:armhf (2.9.4+dfsg1-7+b2) ...
Setting up xdg-utils (1.1.3-1) ...
Setting up libblas-dev:armhf (3.8.0-8) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode
Setting up dctrl-tools (2.24-3) ...
Setting up libbz2-dev:armhf (1.0.8-2) ...
Setting up libfile-stripnondeterminism-perl (1.6.1-1) ...
Setting up libice6:armhf (2:1.0.9-2) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up liblapack3:armhf (3.8.0-8) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode
Setting up libncurses-dev:armhf (6.1+20191019-1) ...
Setting up libxcb1:armhf (1.13.1-2) ...
Setting up libpcre2-dev:armhf (10.32-5) ...
Setting up libtool (2.4.6-11) ...
Setting up libxcb-render0:armhf (1.13.1-2) ...
Setting up libpcre3-dev:armhf (2:8.39-12) ...
Setting up libpng-dev:armhf (1.6.37-1) ...
Setting up libjpeg-dev (1:1.5.2-2) ...
Setting up libgfortran-9-dev:armhf (9.2.1-17+rpi1) ...
Setting up m4 (1.4.18-4) ...
Setting up libxcb-shm0:armhf (1.13.1-2) ...
Setting up libreadline-dev:armhf (8.0-3) ...
Setting up libthai0:armhf (0.1.28-3) ...
Setting up ca-certificates (20190110) ...
Updating certificates in /etc/ssl/certs...
128 added, 0 removed; done.
Setting up libfreetype6:armhf (2.10.1-2) ...
Setting up bsdmainutils (11.1.2) ...
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 liblapack-dev:armhf (3.8.0-8) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode
Setting up libgssapi-krb5-2:armhf (1.17-6+b1) ...
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up ucf (3.0038+nmu1) ...
Setting up autoconf (2.69-11) ...
Setting up dwz (0.13-2) ...
Setting up groff-base (1.22.4-3) ...
Setting up libncurses5-dev:armhf (6.1+20191019-1) ...
Setting up libcurl4:armhf (7.66.0-1+b1) ...
Setting up libx11-6:armhf (2:1.6.8-1) ...
Setting up libharfbuzz0b:armhf (2.6.4-1+rpi1) ...
Setting up libsm6:armhf (2:1.2.3-1) ...
Setting up libxmuu1:armhf (2:1.1.2-2+b3) ...
Setting up automake (1:1.16.1-4) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libpaper1:armhf (1.1.28) ...
Creating config file /etc/papersize with new version
Setting up gettext (0.19.8.1-9) ...
Setting up libxrender1:armhf (1:0.9.10-1) ...
Setting up gfortran-9 (9.2.1-17+rpi1) ...
Setting up fontconfig-config (2.13.1-2) ...
Setting up libxext6:armhf (2:1.3.3-1+b2) ...
Setting up libpaper-utils (1.1.28) ...
Setting up man-db (2.9.0-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up gfortran (4:9.2.1-3+rpi1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libcurl4-openssl-dev:armhf (7.66.0-1+b1) ...
Setting up libxt6:armhf (1:1.1.5-1+b3) ...
Setting up xauth (1:1.0.10-1) ...
Setting up libxss1:armhf (1:1.2.3-1) ...
Setting up libfontconfig1:armhf (2.13.1-2) ...
Setting up fontconfig (2.13.1-2) ...
Regenerating fonts cache... done.
Setting up libxft2:armhf (2.3.2-2) ...
Setting up po-debconf (1.0.21) ...
Setting up libtk8.6:armhf (8.6.9-2) ...
Setting up libpango-1.0-0:armhf (1.42.4-7+b1) ...
Setting up libcairo2:armhf (1.16.0-4) ...
Setting up libpangoft2-1.0-0:armhf (1.42.4-7+b1) ...
Setting up libpangocairo-1.0-0:armhf (1.42.4-7+b1) ...
Setting up r-base-core (3.6.1-7) ...
Creating config file /etc/R/Renviron with new version
Setting up r-cran-futile.options (1.0.1-2) ...
Setting up r-cran-formatr (1.7-1) ...
Setting up r-bioc-genomeinfodbdata (1.2.2-1) ...
Setting up r-bioc-biocgenerics (0.32.0-1) ...
Setting up r-base-dev (3.6.1-7) ...
Setting up r-cran-lambda.r (1.2.4-1) ...
Setting up r-cran-snow (1:0.4.3-1) ...
Setting up r-cran-bitops (1.0-6-4) ...
Setting up r-bioc-zlibbioc (1.32.0+dfsg-1) ...
Setting up r-bioc-s4vectors (0.24.0-1) ...
Setting up r-cran-futile.logger (1.4.3-3) ...
Setting up r-bioc-iranges (2.20.0-1) ...
Setting up r-cran-rcurl (1.95-4.12-1) ...
Setting up r-bioc-biocparallel (1.20.0-1) ...
Setting up r-bioc-rhtslib (1.18.0+dfsg-1) ...
Setting up r-bioc-genomeinfodb (1.22.0-1) ...
Setting up r-bioc-xvector (0.26.0-1) ...
Setting up r-bioc-genomicranges (1.38.0+dfsg-1) ...
Setting up r-bioc-biostrings (2.54.0-1) ...
Setting up dh-strip-nondeterminism (1.6.1-1) ...
Setting up debhelper (12.7.1) ...
Setting up dh-autoreconf (19) ...
Setting up dh-r (20190917) ...
Setting up sbuild-build-depends-r-bioc-rsamtools-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.29-2+rpi1) ...
Processing triggers for ca-certificates (20190110) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.33.1-2+rpi1 dpkg-dev_1.19.7 g++-9_9.2.1-17+rpi1 gcc-9_9.2.1-17+rpi1 libc6-dev_2.29-2+rpi1 libstdc++-9-dev_9.2.1-17+rpi1 libstdc++6_9.2.1-17+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_1.8.4 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.46 bash_5.0-5 binutils_2.33.1-2+rpi1 binutils-arm-linux-gnueabihf_2.33.1-2+rpi1 binutils-common_2.33.1-2+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 ca-certificates_20190110 coreutils_8.30-3 cpp_4:9.2.1-3+rpi1 cpp-9_9.2.1-17+rpi1 dash_0.5.10.2-6 dctrl-tools_2.24-3 debconf_1.5.73 debhelper_12.7.1 debianutils_4.9 dh-autoreconf_19 dh-r_20190917 dh-strip-nondeterminism_1.6.1-1 diffutils_1:3.7-3 dirmngr_2.2.17-3+b1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-2 e2fsprogs_1.45.4-1 fakeroot_1.24-1 fdisk_2.34-0.1 file_1:5.37-6 findutils_4.7.0-1 fontconfig_2.13.1-2 fontconfig-config_2.13.1-2 fonts-dejavu-core_2.37-1 g++_4:9.2.1-3+rpi1 g++-9_9.2.1-17+rpi1 gcc_4:9.2.1-3+rpi1 gcc-4.9-base_4.9.4-2+rpi1+b19 gcc-5-base_5.5.0-8 gcc-6-base_6.5.0-1+rpi1+b3 gcc-9_9.2.1-17+rpi1 gcc-9-base_9.2.1-17+rpi1 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gfortran_4:9.2.1-3+rpi1 gfortran-9_9.2.1-17+rpi1 gnupg_2.2.17-3 gnupg-l10n_2.2.17-3 gnupg-utils_2.2.17-3+b1 gpg_2.2.17-3+b1 gpg-agent_2.2.17-3+b1 gpg-wks-client_2.2.17-3+b1 gpg-wks-server_2.2.17-3+b1 gpgconf_2.2.17-3+b1 gpgsm_2.2.17-3+b1 gpgv_2.2.17-3+b1 grep_3.3-1 groff-base_1.22.4-3 gzip_1.9-3 hostname_3.23 icu-devtools_63.2-2 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20190709-2 libacl1_2.2.53-5 libapt-pkg5.0_1.8.4 libarchive-zip-perl_1.67-1 libasan5_9.2.1-17+rpi1 libassuan0_2.5.3-7 libatomic1_9.2.1-17+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2 libbinutils_2.33.1-2+rpi1 libblas-dev_3.8.0-8 libblas3_3.8.0-8 libblkid1_2.34-0.1 libbrotli1_1.0.7-5 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libbz2-dev_1.0.8-2 libc-bin_2.29-2+rpi1 libc-dev-bin_2.29-2+rpi1 libc6_2.29-2+rpi1 libc6-dev_2.29-2+rpi1 libcairo2_1.16.0-4 libcap-ng0_0.7.9-2.1 libcap2_1:2.27-1 libcap2-bin_1:2.27-1 libcc1-0_9.2.1-17+rpi1 libcom-err2_1.45.4-1 libcroco3_0.6.13-1 libcurl4_7.66.0-1+b1 libcurl4-openssl-dev_7.66.0-1+b1 libdatrie1_0.2.12-3+b1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.250 libdebhelper-perl_12.7.1 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.4-1 libfakeroot_1.24-1 libfdisk1_2.34-0.1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.6.1-1 libfile-which-perl_1.23-1 libfontconfig1_2.13.1-2 libfreetype6_2.10.1-2 libfribidi0_1.0.7-1.1 libgcc-9-dev_9.2.1-17+rpi1 libgcc1_1:9.2.1-17+rpi1 libgcrypt20_1.8.5-3 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran-9-dev_9.2.1-17+rpi1 libgfortran5_9.2.1-17+rpi1 libglib2.0-0_2.62.2-3 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.10-4 libgomp1_9.2.1-17+rpi1 libgpg-error0_1.36-7 libgraphite2-3_1.3.13-11 libgssapi-krb5-2_1.17-6+b1 libharfbuzz0b_2.6.4-1+rpi1 libhogweed5_3.5.1+really3.5.1-2 libice6_2:1.0.9-2 libicu-dev_63.2-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libisl19_0.20-2 libisl21_0.21-2 libjbig0_2.1-3.1+b2 libjpeg-dev_1:1.5.2-2 libjpeg62-turbo_1:1.5.2-2+b1 libjpeg62-turbo-dev_1:1.5.2-2+b1 libk5crypto3_1.17-6+b1 libkeyutils1_1.6-6 libkrb5-3_1.17-6+b1 libkrb5support0_1.17-6+b1 libksba8_1.3.5-2 liblapack-dev_3.8.0-8 liblapack3_3.8.0-8 libldap-2.4-2_2.4.48+dfsg-1+b2 libldap-common_2.4.48+dfsg-1 liblz4-1_1.9.2-1 liblzma-dev_5.2.4-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.37-6 libmagic1_1:5.37-6 libmount1_2.34-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncurses-dev_6.1+20191019-1 libncurses5-dev_6.1+20191019-1 libncurses6_6.1+20191019-1 libncursesw6_6.1+20191019-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.39.2-1 libnpth0_1.6-1 libp11-kit0_0.23.18.1-2 libpam-cap_1:2.27-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpango-1.0-0_1.42.4-7+b1 libpangocairo-1.0-0_1.42.4-7+b1 libpangoft2-1.0-0_1.42.4-7+b1 libpaper-utils_1.1.28 libpaper1_1.1.28 libpcre16-3_2:8.39-12 libpcre2-16-0_10.32-5 libpcre2-32-0_10.32-5 libpcre2-8-0_10.32-5 libpcre2-dev_10.32-5 libpcre2-posix0_10.32-5 libpcre3_2:8.39-12 libpcre3-dev_2:8.39-12 libpcre32-3_2:8.39-12 libpcrecpp0v5_2:8.39-12 libperl5.30_5.30.0-9 libpipeline1_1.5.1-2 libpixman-1-0_0.36.0-1 libpng-dev_1.6.37-1 libpng16-16_1.6.37-1 libpsl5_0.20.2-2 libreadline-dev_8.0-3 libreadline7_7.0-5 libreadline8_8.0-3 librtmp1_2.4+20151223.gitfa8646d.1-2+b1 libsasl2-2_2.1.27+dfsg-1+b1 libsasl2-modules-db_2.1.27+dfsg-1+b1 libseccomp2_2.4.1-2+rpi1 libselinux1_2.9-2 libsemanage-common_2.9-3 libsemanage1_2.9-3 libsepol1_2.9-2 libsigsegv2_2.12-2 libsm6_2:1.2.3-1 libsmartcols1_2.34-0.1 libsqlite3-0_3.30.1-1 libss2_1.45.4-1 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1d-2 libstdc++-9-dev_9.2.1-17+rpi1 libstdc++6_9.2.1-17+rpi1 libsub-override-perl_0.09-2 libswitch-perl_2.17-2 libsystemd0_242-7+rpi1 libtasn1-6_4.14-3 libtcl8.6_8.6.9+dfsg-2 libthai-data_0.1.28-3 libthai0_0.1.28-3 libtiff5_4.1.0-1 libtinfo5_6.1+20191019-1 libtinfo6_6.1+20191019-1 libtk8.6_8.6.9-2 libtool_2.4.6-11 libubsan1_9.2.1-17+rpi1 libuchardet0_0.0.6-3 libudev1_242-7+rpi1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libwebp6_0.6.1-2 libx11-6_2:1.6.8-1 libx11-data_2:1.6.8-1 libxau6_1:1.0.8-1+b2 libxcb-render0_1.13.1-2 libxcb-shm0_1.13.1-2 libxcb1_1.13.1-2 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1+b2 libxft2_2.3.2-2 libxml2_2.9.4+dfsg1-7+b2 libxmuu1_2:1.1.2-2+b3 libxrender1_1:0.9.10-1 libxss1_1:1.2.3-1 libxt6_1:1.1.5-1+b3 libzstd1_1.4.3+dfsg-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.7-2 logsave_1.45.4-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-1 mawk_1.3.3-17 mount_2.34-0.1 ncurses-base_6.1+20191019-1 ncurses-bin_6.1+20191019-1 netbase_5.6 openssl_1.1.1d-2 passwd_1:4.7-2 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.30_5.30.0-9 pinentry-curses_1.1.0-3 pkg-config_0.29-6 po-debconf_1.0.21 r-base-core_3.6.1-7 r-base-dev_3.6.1-7 r-bioc-biocgenerics_0.32.0-1 r-bioc-biocparallel_1.20.0-1 r-bioc-biostrings_2.54.0-1 r-bioc-genomeinfodb_1.22.0-1 r-bioc-genomeinfodbdata_1.2.2-1 r-bioc-genomicranges_1.38.0+dfsg-1 r-bioc-iranges_2.20.0-1 r-bioc-rhtslib_1.18.0+dfsg-1 r-bioc-s4vectors_0.24.0-1 r-bioc-xvector_0.26.0-1 r-bioc-zlibbioc_1.32.0+dfsg-1 r-cran-bitops_1.0-6-4 r-cran-formatr_1.7-1 r-cran-futile.logger_1.4.3-3 r-cran-futile.options_1.0.1-2 r-cran-lambda.r_1.2.4-1 r-cran-rcurl_1.95-4.12-1 r-cran-snow_1:0.4.3-1 raspbian-archive-keyring_20120528.2 readline-common_8.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-rsamtools-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 sysvinit-utils_2.96-1 tar_1.30+dfsg-6 tzdata_2019c-3 ucf_3.0038+nmu1 unzip_6.0-25 util-linux_2.34-0.1 x11-common_1:7.7+20 xauth_1:1.0.10-1 xdg-utils_1.1.3-1 xz-utils_5.2.4-1 zip_3.0-11 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Mon Nov 11 08:38:49 2019 UTC
gpgv: using RSA key 9A3C07BD06DE2F416E813A5D612EF1613E050F54
gpgv: issuer "daissi@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./r-bioc-rsamtools_2.2.1-1.dsc
dpkg-source: info: extracting r-bioc-rsamtools in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking r-bioc-rsamtools_2.2.1.orig.tar.gz
dpkg-source: info: unpacking r-bioc-rsamtools_2.2.1-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying skip_test_requiring_network.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=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-611cb66f-70c2-48bd-9069-abd44192cb87
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package r-bioc-rsamtools
dpkg-buildpackage: info: source version 2.2.1-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --buildsystem R
dh_auto_clean -O--buildsystem=R
dh_autoreconf_clean -O--buildsystem=R
dh_clean -O--buildsystem=R
debian/rules build-arch
dh build-arch --buildsystem R
dh_update_autotools_config -a -O--buildsystem=R
dh_autoreconf -a -O--buildsystem=R
dh_auto_configure -a -O--buildsystem=R
dh_auto_build -a -O--buildsystem=R
dh_auto_test -a -O--buildsystem=R
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch --buildsystem R
dh_testroot -a -O--buildsystem=R
dh_prep -a -O--buildsystem=R
dh_auto_install -a -O--buildsystem=R
I: R packages needed for DEP8: runit, shortread
I: R Package: Rsamtools Version: 2.2.1
I: Building using R version 3.6.1-7
I: R API version: r-api-3.5
I: Using built-time from d/changelog: Mon, 11 Nov 2019 09:30:13 +0100
mkdir -p /<<PKGBUILDDIR>>/debian/r-bioc-rsamtools/usr/lib/R/site-library
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-rsamtools/usr/lib/R/site-library --clean . "--built-timestamp='Mon, 11 Nov 2019 09:30:13 +0100'"
* installing *source* package 'Rsamtools' ...
** using staged installation
** libs
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -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_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c COMPAT_bcf_hdr_read.c -o COMPAT_bcf_hdr_read.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c IRanges_stubs.c -o IRanges_stubs.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c PileupBuffer.cpp -o PileupBuffer.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c PosCacheColl.cpp -o PosCacheColl.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_init_Rsamtools.c -o R_init_Rsamtools.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ResultManager.cpp -o ResultManager.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -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 -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -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 -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c as_bam.c -o as_bam.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bam.c -o bam.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bam_data.c -o bam_data.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bam_mate_iter.cpp -o bam_mate_iter.o
In file included from /usr/lib/R/site-library/Rhtslib/include/sam.h:29,
from Template.h:9,
from BamIterator.h:10,
from BamRangeIterator.h:7,
from bam_mate_iter.cpp:2:
BamRangeIterator.h: In member function 'virtual void BamRangeIterator::finalize_inprogress(bamFile)':
/usr/lib/R/site-library/Rhtslib/include/bam.h:57:41: warning: ignoring return value of 'int64_t bgzf_seek(BGZF*, int64_t, int)', declared with attribute warn_unused_result [-Wunused-result]
57 | #define bam_seek(fp, pos, dir) bgzf_seek(fp, pos, dir)
| ~~~~~~~~~^~~~~~~~~~~~~~
BamRangeIterator.h:138:9: note: in expansion of macro 'bam_seek'
138 | bam_seek(bfile, pos, SEEK_SET);
| ^~~~~~~~
BamIterator.h: In constructor 'BamIterator::BamIterator(bamFile, const bam_index_t*)':
/usr/lib/R/site-library/Rhtslib/include/bam.h:57:41: warning: ignoring return value of 'int64_t bgzf_seek(BGZF*, int64_t, int)', declared with attribute warn_unused_result [-Wunused-result]
57 | #define bam_seek(fp, pos, dir) bgzf_seek(fp, pos, dir)
| ~~~~~~~~~^~~~~~~~~~~~~~
BamIterator.h:87:9: note: in expansion of macro 'bam_seek'
87 | bam_seek(bfile, 0, 0);
| ^~~~~~~~
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bam_plbuf.c -o bam_plbuf.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bam_sort.c -o bam_sort.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bambuffer.c -o bambuffer.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bamfile.c -o bamfile.o
bamfile.c: In function 'bamfile_isincomplete':
bamfile.c:168:13: warning: ignoring return value of 'bgzf_seek', declared with attribute warn_unused_result [-Wunused-result]
168 | bgzf_seek(bfile->file->x.bam, offset, SEEK_SET);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bcffile.c -o bcffile.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c encode.c -o encode.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fafile.c -o fafile.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c idxstats.c -o idxstats.o
In file included from /usr/lib/R/site-library/Rhtslib/include/sam.h:29,
from bamfile.h:5,
from idxstats.c:1:
idxstats.c: In function 'idxstats_bamfile':
/usr/lib/R/site-library/Rhtslib/include/bam.h:57:32: warning: ignoring return value of 'bgzf_seek', declared with attribute warn_unused_result [-Wunused-result]
57 | #define bam_seek(fp, pos, dir) bgzf_seek(fp, pos, dir)
| ^~~~~~~~~~~~~~~~~~~~~~~
idxstats.c:20:5: note: in expansion of macro 'bam_seek'
20 | bam_seek(fp, 0, 0);
| ^~~~~~~~
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c io_sam.c -o io_sam.o
In file included from /usr/lib/R/site-library/Rhtslib/include/sam.h:29,
from io_sam.c:2:
io_sam.c: In function '_scan_bam_all':
/usr/lib/R/site-library/Rhtslib/include/bam.h:57:32: warning: ignoring return value of 'bgzf_seek', declared with attribute warn_unused_result [-Wunused-result]
57 | #define bam_seek(fp, pos, dir) bgzf_seek(fp, pos, dir)
| ^~~~~~~~~~~~~~~~~~~~~~~
io_sam.c:304:5: note: in expansion of macro 'bam_seek'
304 | bam_seek(bfile->file->x.bam, bfile->pos0, SEEK_SET);
| ^~~~~~~~
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pbuffer_wrapper.cpp -o pbuffer_wrapper.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pileup.cpp -o pileup.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pileupbam.c -o pileupbam.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sam.c -o sam.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sam_opts.c -o sam_opts.o
In file included from /usr/include/stdio.h:867,
from /usr/lib/R/site-library/Rhtslib/include/sam_opts.c:27,
from sam_opts.c:1:
In function 'fprintf',
inlined from 'parse_sam_global_opt' at /usr/lib/R/site-library/Rhtslib/include/sam_opts.c:85:9:
/usr/include/arm-linux-gnueabihf/bits/stdio2.h:100:10: warning: '%s' directive argument is null [-Wformat-overflow=]
100 | return __fprintf_chk (__stream, __USE_FORTIFY_LEVEL - 1, __fmt,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
101 | __va_arg_pack ());
| ~~~~~~~~~~~~~~~~~
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sam_utils.c -o sam_utils.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c samtools_patch.c -o samtools_patch.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c scan_bam_data.c -o scan_bam_data.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tabixfile.c -o tabixfile.o
tabixfile.c: In function 'index_tabix':
tabixfile.c:190:5: warning: 'bgzf_is_bgzf' is deprecated: Use bgzf_compression() or hts_detect_format() instead [-Wdeprecated-declarations]
190 | if (bgzf_is_bgzf(fn) != 1)
| ^~
In file included from tabixfile.c:3:
/usr/lib/R/site-library/Rhtslib/include/htslib/bgzf.h:243:9: note: declared here
243 | int bgzf_is_bgzf(const char *fn) HTS_DEPRECATED("Use bgzf_compression() or hts_detect_format() instead");
| ^~~~~~~~~~~~
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tagfilter.c -o tagfilter.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -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_FILE_OFFSET_BITS=64 -I"/usr/lib/R/site-library/Rhtslib/include" -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" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-jEdEmw/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c zip_compression.c -o zip_compression.o
g++ -std=gnu++11 -shared -L/usr/lib/R/lib -Wl,-z,relro -o Rsamtools.so Biostrings_stubs.o COMPAT_bcf_hdr_read.o IRanges_stubs.o PileupBuffer.o PosCacheColl.o R_init_Rsamtools.o ResultManager.o S4Vectors_stubs.o XVector_stubs.o as_bam.o bam.o bam_data.o bam_mate_iter.o bam_plbuf.o bam_sort.o bambuffer.o bamfile.o bcffile.o encode.o fafile.o idxstats.o io_sam.o pbuffer_wrapper.o pileup.o pileupbam.o sam.o sam_opts.o sam_utils.o samtools_patch.o scan_bam_data.o tabixfile.o tagfilter.o utilities.o zip_compression.o /usr/lib/R/site-library/Rhtslib/usrlib/libhts.a -lcurl -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-rsamtools/usr/lib/R/site-library/00LOCK-r-bioc-rsamtools-2.2.1/00new/Rsamtools/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (Rsamtools)
rm -f /<<PKGBUILDDIR>>/debian/r-bioc-rsamtools/usr/lib/R/site-library/Rsamtools/LICENSE
I: Using r-bioc-genomeinfodb for Depends:GenomeInfoDb (>= 1.1.3)
I: Using r-bioc-genomicranges for Depends:GenomicRanges (>= 1.31.8)
I: Using r-bioc-biostrings for Depends:Biostrings (>= 2.47.6)
I: Using r-cran-runit for Recommends:runit
I: Using r-bioc-shortread for Recommends:shortread
I: Using r-bioc-genomicalignments for Suggests:GenomicAlignments
I: Using r-bioc-genomicfeatures for Suggests:GenomicFeatures
W: Cannot find a debian package for Suggests:TxDb.Dmelanogaster.UCSC.dm3.ensGene
W: Cannot find a debian package for Suggests:KEGG.db
W: Cannot find a debian package for Suggests:TxDb.Hsapiens.UCSC.hg18.knownGene
W: Cannot find a debian package for Suggests:RNAseqData.HNRNPC.bam.chr14
W: Cannot find a debian package for Suggests:BSgenome.Hsapiens.UCSC.hg19
W: Cannot find a debian package for Suggests:BiocStyle
I: Using r-bioc-biocgenerics for Imports:BiocGenerics (>= 0.25.1)
I: Using r-bioc-s4vectors for Imports:S4Vectors (>= 0.17.25)
I: Using r-bioc-iranges for Imports:IRanges (>= 2.13.12)
I: Using r-bioc-xvector for Imports:XVector (>= 0.19.7)
I: Using r-bioc-zlibbioc for Imports:zlibbioc
I: Using r-cran-bitops for Imports:bitops
I: Using r-bioc-biocparallel for Imports:BiocParallel
I: BioConductor API version: r-api-bioc-3.10
dh_installdocs -a -O--buildsystem=R
dh_installchangelogs -a -O--buildsystem=R
dh_installinit -a -O--buildsystem=R
dh_installsystemduser -a -O--buildsystem=R
dh_perl -a -O--buildsystem=R
dh_link -a -O--buildsystem=R
dh_strip_nondeterminism -a -O--buildsystem=R
dh_compress -a -O--buildsystem=R
dh_fixperms -a -O--buildsystem=R
dh_missing -a -O--buildsystem=R
dh_dwz -a -O--buildsystem=R
dh_strip -a -O--buildsystem=R
dh_makeshlibs -a -O--buildsystem=R
dh_shlibdeps -a -O--buildsystem=R
dh_installdeb -a -O--buildsystem=R
dh_gencontrol -a -O--buildsystem=R
dh_md5sums -a -O--buildsystem=R
dh_builddeb -a -O--buildsystem=R
dpkg-deb: building package 'r-bioc-rsamtools-dbgsym' in '../r-bioc-rsamtools-dbgsym_2.2.1-1_armhf.deb'.
dpkg-deb: building package 'r-bioc-rsamtools' in '../r-bioc-rsamtools_2.2.1-1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../r-bioc-rsamtools_2.2.1-1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2019-11-18T05:37:03Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
r-bioc-rsamtools_2.2.1-1_armhf.changes:
---------------------------------------
Format: 1.8
Date: Mon, 11 Nov 2019 09:30:13 +0100
Source: r-bioc-rsamtools
Binary: r-bioc-rsamtools r-bioc-rsamtools-dbgsym
Architecture: armhf
Version: 2.2.1-1
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Dylan Aïssi <daissi@debian.org>
Description:
r-bioc-rsamtools - GNU R binary alignment (BAM), variant call (BCF), or tabix file i
Changes:
r-bioc-rsamtools (2.2.1-1) unstable; urgency=medium
.
* Team upload.
* New upstream version
* dh-update-R to update Build-Depends
* Add libcurl4-openssl-dev to Build-Depends
Checksums-Sha1:
51f712637b092f3223e10687f050ebc472d679d5 802836 r-bioc-rsamtools-dbgsym_2.2.1-1_armhf.deb
d7ae56172b070aa9bb7ede89ff53c01109f4ce4a 8318 r-bioc-rsamtools_2.2.1-1_armhf.buildinfo
01591e8eab28f4526e436a32f4d8a0618712ad09 3657056 r-bioc-rsamtools_2.2.1-1_armhf.deb
Checksums-Sha256:
ff3734b5284523405c9f9416fde6232d6c4916f6bc241ed41cf4280bb5a98785 802836 r-bioc-rsamtools-dbgsym_2.2.1-1_armhf.deb
ea4c6e8e237e79f65fc4fac9f08462c4995fd9614b7df3510f14e9f91f111cea 8318 r-bioc-rsamtools_2.2.1-1_armhf.buildinfo
385ba89e6bb183112ef75899f4bf107d64b84c95d5d6dc2d8372ad3d9e279b40 3657056 r-bioc-rsamtools_2.2.1-1_armhf.deb
Files:
78e167325ae737c69ad45113915f25e6 802836 debug optional r-bioc-rsamtools-dbgsym_2.2.1-1_armhf.deb
08a9876bb8d092751a884b783f6bb2f0 8318 gnu-r optional r-bioc-rsamtools_2.2.1-1_armhf.buildinfo
7868ed840c2d6afe0a57829eea65f517 3657056 gnu-r optional r-bioc-rsamtools_2.2.1-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
r-bioc-rsamtools-dbgsym_2.2.1-1_armhf.deb
-----------------------------------------
new Debian package, version 2.0.
size 802836 bytes: control archive=540 bytes.
400 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: r-bioc-rsamtools-dbgsym
Source: r-bioc-rsamtools
Version: 2.2.1-1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Installed-Size: 881
Depends: r-bioc-rsamtools (= 2.2.1-1)
Section: debug
Priority: optional
Description: debug symbols for r-bioc-rsamtools
Build-Ids: d9a6ecb7fe39ad60dd9ab48b186ff2aba2dab2b9
drwxr-xr-x root/root 0 2019-11-11 08:30 ./
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/debug/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/debug/.build-id/d9/
-rw-r--r-- root/root 891208 2019-11-11 08:30 ./usr/lib/debug/.build-id/d9/a6ecb7fe39ad60dd9ab48b186ff2aba2dab2b9.debug
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/share/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/share/doc/
lrwxrwxrwx root/root 0 2019-11-11 08:30 ./usr/share/doc/r-bioc-rsamtools-dbgsym -> r-bioc-rsamtools
r-bioc-rsamtools_2.2.1-1_armhf.deb
----------------------------------
new Debian package, version 2.0.
size 3657056 bytes: control archive=3876 bytes.
1070 bytes, 16 lines control
10163 bytes, 111 lines md5sums
Package: r-bioc-rsamtools
Version: 2.2.1-1
Architecture: armhf
Maintainer: Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Installed-Size: 5498
Depends: r-base-core (>= 3.6.1-7), r-api-3.5, r-api-bioc-3.10, r-bioc-genomeinfodb (>= 1.1.3), r-bioc-genomicranges (>= 1.31.8), r-bioc-biostrings (>= 2.47.6), r-bioc-biocgenerics (>= 0.25.1), r-bioc-s4vectors (>= 0.17.25), r-bioc-iranges (>= 2.13.12), r-bioc-xvector (>= 0.19.7), r-bioc-zlibbioc, r-cran-bitops, r-bioc-biocparallel, libc6 (>= 2.15), libcurl4 (>= 7.18.0), libgcc1 (>= 1:3.5), libstdc++6 (>= 5.2)
Recommends: r-cran-runit, r-bioc-shortread
Suggests: r-bioc-genomicalignments, r-bioc-genomicfeatures
Section: gnu-r
Priority: optional
Homepage: https://bioconductor.org/packages/Rsamtools/
Description: GNU R binary alignment (BAM), variant call (BCF), or tabix file import
This package provides an interface to the 'samtools', 'bcftools', and
'tabix' utilities for manipulating SAM (Sequence Alignment / Map),
binary variant call (BCF) and compressed indexed tab-delimited (tabix)
files.
drwxr-xr-x root/root 0 2019-11-11 08:30 ./
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/
-rw-r--r-- root/root 1726 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/DESCRIPTION
-rw-r--r-- root/root 2303 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/INDEX
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/Meta/
-rw-r--r-- root/root 3297 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/Meta/Rd.rds
-rw-r--r-- root/root 132 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/Meta/features.rds
-rw-r--r-- root/root 3528 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/Meta/hsearch.rds
-rw-r--r-- root/root 2523 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/Meta/links.rds
-rw-r--r-- root/root 800 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/Meta/nsInfo.rds
-rw-r--r-- root/root 1700 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/Meta/package.rds
-rw-r--r-- root/root 285 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/Meta/vignette.rds
-rw-r--r-- root/root 1431 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/NAMESPACE
-rw-r--r-- root/root 15141 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/NEWS
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/R/
-rw-r--r-- root/root 1056 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/R/Rsamtools
-rw-r--r-- root/root 792903 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/R/Rsamtools.rdb
-rw-r--r-- root/root 6683 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/R/Rsamtools.rdx
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/doc/
-rw-r--r-- root/root 9648 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/doc/Rsamtools-Overview.R
-rw-r--r-- root/root 19845 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/doc/Rsamtools-Overview.Rnw
-rw-r--r-- root/root 181169 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/doc/Rsamtools-Overview.pdf
-rw-r--r-- root/root 221 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/doc/Rsamtools-UsingCLibraries.R
-rw-r--r-- root/root 3855 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/doc/Rsamtools-UsingCLibraries.Rnw
-rw-r--r-- root/root 125929 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/doc/Rsamtools-UsingCLibraries.pdf
-rw-r--r-- root/root 1976 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/doc/index.html
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/
-rw-r--r-- root/root 176 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/ce2dict1.fa
-rw-r--r-- root/root 112 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/ce2dict1.fa.fai
-rw-r--r-- root/root 126539 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/ex1.bam
-rw-r--r-- root/root 176 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/ex1.bam.bai
-rw-r--r-- root/root 79176 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/ex1.bcf.gz
-rw-r--r-- root/root 110 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/ex1.bcf.gz.csi
-rw-r--r-- root/root 559422 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/ex1.sam
-rw-r--r-- root/root 74987 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/ex1.vcf.gz
-rw-r--r-- root/root 143 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/ex1.vcf.gz.csi
-rw-r--r-- root/root 3778 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/example.gtf.gz
-rw-r--r-- root/root 259 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/example.gtf.gz.tbi
-rw-r--r-- root/root 348 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/example_from_SAM_Spec.bam
-rw-r--r-- root/root 96 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/example_from_SAM_Spec.bam.bai
-rw-r--r-- root/root 368 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/example_from_SAM_Spec.sam
-rw-r--r-- root/root 203 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/no_which_buffered_pileup.bam
-rw-r--r-- root/root 176 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/no_which_buffered_pileup.bam.bai
-rw-r--r-- root/root 240 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/no_which_buffered_pileup.sam
-rw-r--r-- root/root 198 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/no_which_whole_file.bam
-rw-r--r-- root/root 176 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/no_which_whole_file.bam.bai
-rw-r--r-- root/root 168 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/no_which_whole_file.sam
-rw-r--r-- root/root 1663363 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/olaps.Rda
-rw-r--r-- root/root 138598 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/pileup.txt
-rw-r--r-- root/root 181 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/querybins.bam
-rw-r--r-- root/root 96 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/querybins.bam.bai
-rw-r--r-- root/root 117 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/querybins.sam
-rw-r--r-- root/root 381 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/revbins.bam
-rw-r--r-- root/root 416 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/revbins.bam.bai
-rw-r--r-- root/root 770 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/revbins.sam
-rw-r--r-- root/root 31 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/samtools-github.txt
-rw-r--r-- root/root 2808 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/slxMaq09_urls.txt
-rw-r--r-- root/root 333 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tagfilter.bam
-rw-r--r-- root/root 656 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tagfilter.bam.bai
-rw-r--r-- root/root 804 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tagfilter.sam
-rw-r--r-- root/root 1167 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tiny.bam
-rw-r--r-- root/root 2336 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tiny.bam.bai
-rw-r--r-- root/root 4102 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tiny.sam
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tophat/
-rw-r--r-- root/root 36 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tophat/README
-rw-r--r-- root/root 36039 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tophat/accepted_hits.sam
-rw-r--r-- root/root 4381 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tophat/coverage.wig
-rw-r--r-- root/root 196 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/extdata/tophat/junctions.bed
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/help/
-rw-r--r-- root/root 11579 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/help/AnIndex
-rw-r--r-- root/root 176612 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/help/Rsamtools.rdb
-rw-r--r-- root/root 781 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/help/Rsamtools.rdx
-rw-r--r-- root/root 2571 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/help/aliases.rds
-rw-r--r-- root/root 390 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/help/paths.rds
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/html/
-rw-r--r-- root/root 43017 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/html/00Index.html
-rw-r--r-- root/root 1335 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/html/R.css
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/libs/
-rw-r--r-- root/root 816276 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/libs/Rsamtools.so
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/scripts/
-rw-r--r-- root/root 2984 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/scripts/BamViews-1000g.R
-rw-r--r-- root/root 1000 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/scripts/features.R
-rw-r--r-- root/root 765 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/scripts/remote_test.R
-rwxr-xr-x root/root 997 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/scripts/update-samtools.sh
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/
-rw-r--r-- root/root 114590 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1.sam.gz
-rw-r--r-- root/root 126539 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1_noindex.bam
-rw-r--r-- root/root 42031 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1_shuf1000.bam
-rw-r--r-- root/root 72 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1_shuf1000.bam.bai
-rw-r--r-- root/root 155405 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1_unsort.bam
-rw-r--r-- root/root 0 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/ex1_zero_index.bam.bai
-rw-r--r-- root/root 576 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/no_SAMPLE_header.vcf.gz
-rw-r--r-- root/root 413 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/no_header_line.vcf.gz
-rw-r--r-- root/root 1608 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/pileup-no-stars.txt
-rw-r--r-- root/root 246 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/plp_refskip.bam
-rw-r--r-- root/root 96 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/cases/plp_refskip.bam.bai
-rw-r--r-- root/root 12467 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_BamFile.R
-rw-r--r-- root/root 5825 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_BamViews.R
-rw-r--r-- root/root 4123 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_BcfFile.R
-rw-r--r-- root/root 2823 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_FaFile.R
-rw-r--r-- root/root 1677 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_RsamtoolsFile.R
-rw-r--r-- root/root 3106 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_TabixFile.R
-rw-r--r-- root/root 7314 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_applyPileups.R
-rw-r--r-- root/root 881 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_asBam.R
-rw-r--r-- root/root 11568 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_bam.R
-rw-r--r-- root/root 2427 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_bam_count.R
-rw-r--r-- root/root 304 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_bam_header.R
-rw-r--r-- root/root 409 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_compression.R
-rw-r--r-- root/root 832 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_mapqfilter.R
-rw-r--r-- root/root 1238 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_phred2ASCIIOffset.R
-rw-r--r-- root/root 5692 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_pileup_nowhich.R
-rw-r--r-- root/root 14882 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_pileup_querybins.R
-rw-r--r-- root/root 18698 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_pileup_revbins.R
-rw-r--r-- root/root 52865 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_pileup_single_range.R
-rw-r--r-- root/root 1175 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_readPileup.R
-rw-r--r-- root/root 343 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_scanBamFlag.R
-rw-r--r-- root/root 710 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_sortBam_test.R
-rw-r--r-- root/root 3569 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_tagfilter.R
-rw-r--r-- root/root 183 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_testPairedEndBam.R
-rw-r--r-- root/root 645 2019-11-11 08:30 ./usr/lib/R/site-library/Rsamtools/unitTests/test_utilities.R
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/share/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-11-11 08:30 ./usr/share/doc/r-bioc-rsamtools/
-rw-r--r-- root/root 560 2019-11-11 08:30 ./usr/share/doc/r-bioc-rsamtools/README.test
-rw-r--r-- root/root 1471 2019-11-11 08:30 ./usr/share/doc/r-bioc-rsamtools/changelog.Debian.gz
-rw-r--r-- root/root 5315 2019-11-11 08:30 ./usr/share/doc/r-bioc-rsamtools/copyright
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 15784
Build-Time: 461
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 1024
Job: r-bioc-rsamtools_2.2.1-1
Machine Architecture: armhf
Package: r-bioc-rsamtools
Package-Time: 1537
Source-Version: 2.2.1-1
Space: 15784
Status: successful
Version: 2.2.1-1
--------------------------------------------------------------------------------
Finished at 2019-11-18T05:37:03Z
Build needed 00:25:37, 15784k disc space