I: pbuilder: network access will be disabled during build I: Current time: Tue Oct 29 22:57:38 -12 2024 I: pbuilder-time-stamp: 1730285858 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [r-bioc-oligo_1.68.2+ds-1.dsc] I: copying [./r-bioc-oligo_1.68.2+ds.orig.tar.xz] I: copying [./r-bioc-oligo_1.68.2+ds-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Aug 18 09:44:42 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./r-bioc-oligo_1.68.2+ds-1.dsc: no acceptable signature found dpkg-source: info: extracting r-bioc-oligo in r-bioc-oligo-1.68.2+ds dpkg-source: info: unpacking r-bioc-oligo_1.68.2+ds.orig.tar.xz dpkg-source: info: unpacking r-bioc-oligo_1.68.2+ds-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying runit_should_not_write_to_usr.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3686408/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='89ff768719df4ecbb24dd927b093a3a0' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='3686408' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.NY7s95bH/pbuilderrc_4y0D --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.NY7s95bH/b1 --logfile b1/build.log r-bioc-oligo_1.68.2+ds-1.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink02-arm64 6.1.0-26-cloud-arm64 #1 SMP Debian 6.1.112-1 (2024-09-30) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3686408/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.50.0), r-bioc-oligoclasses (>= 1.66.0), r-bioc-biobase (>= 2.64.0), r-bioc-biostrings (>= 2.72.1), r-bioc-affyio (>= 1.74.0), r-bioc-affxparser (>= 1.76.0), r-cran-dbi, r-cran-ff, r-bioc-preprocesscore (>= 1.66.0), r-cran-rsqlite, r-bioc-zlibbioc (>= 1.50.0), architecture-is-64-bit dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20061 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-r; however: Package dh-r is not installed. pbuilder-satisfydepends-dummy depends on r-base-dev; however: Package r-base-dev is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocgenerics (>= 0.50.0); however: Package r-bioc-biocgenerics is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-oligoclasses (>= 1.66.0); however: Package r-bioc-oligoclasses is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biobase (>= 2.64.0); however: Package r-bioc-biobase is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biostrings (>= 2.72.1); however: Package r-bioc-biostrings is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-affyio (>= 1.74.0); however: Package r-bioc-affyio is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-affxparser (>= 1.76.0); however: Package r-bioc-affxparser is not installed. pbuilder-satisfydepends-dummy depends on r-cran-dbi; however: Package r-cran-dbi is not installed. pbuilder-satisfydepends-dummy depends on r-cran-ff; however: Package r-cran-ff is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-preprocesscore (>= 1.66.0); however: Package r-bioc-preprocesscore is not installed. pbuilder-satisfydepends-dummy depends on r-cran-rsqlite; however: Package r-cran-rsqlite is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-zlibbioc (>= 1.50.0); however: Package r-bioc-zlibbioc is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} gfortran{a} gfortran-14{a} gfortran-14-aarch64-linux-gnu{a} gfortran-aarch64-linux-gnu{a} groff-base{a} icu-devtools{a} intltool-debian{a} libalgorithm-c3-perl{a} libarchive-zip-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libblas-dev{a} libblas3{a} libbrotli1{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdevel-globaldestruction-perl{a} libdevel-overloadinfo-perl{a} libdevel-stacktrace-perl{a} libdist-checkconflicts-perl{a} libdynaloader-functions-perl{a} libelf1t64{a} libencode-locale-perl{a} libeval-closure-perl{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran-14-dev{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmodule-implementation-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoose-perl{a} libmro-compat-perl{a} libnamespace-clean-perl{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libpackage-deprecationmanager-perl{a} libpackage-stash-perl{a} libpackage-stash-xs-perl{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1t64{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libswitch-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} liburi-perl{a} libvariable-magic-perl{a} libwebp7{a} libwww-curl-perl{a} libwww-curl-simple-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6t64{a} m4{a} man-db{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-bioc-affxparser{a} r-bioc-affyio{a} r-bioc-biobase{a} r-bioc-biocgenerics{a} r-bioc-biostrings{a} r-bioc-delayedarray{a} r-bioc-genomeinfodb{a} r-bioc-genomeinfodbdata{a} r-bioc-genomicranges{a} r-bioc-iranges{a} r-bioc-matrixgenerics{a} r-bioc-oligoclasses{a} r-bioc-preprocesscore{a} r-bioc-s4arrays{a} r-bioc-s4vectors{a} r-bioc-sparsearray{a} r-bioc-summarizedexperiment{a} r-bioc-ucsc.utils{a} r-bioc-xvector{a} r-bioc-zlibbioc{a} r-cran-abind{a} r-cran-askpass{a} r-cran-biocmanager{a} r-cran-bit{a} r-cran-bit64{a} r-cran-blob{a} r-cran-cachem{a} r-cran-cli{a} r-cran-codetools{a} r-cran-cpp11{a} r-cran-crayon{a} r-cran-curl{a} r-cran-dbi{a} r-cran-fastmap{a} r-cran-ff{a} r-cran-foreach{a} r-cran-glue{a} r-cran-httr{a} r-cran-iterators{a} r-cran-jsonlite{a} r-cran-lattice{a} r-cran-lifecycle{a} r-cran-matrix{a} r-cran-matrixstats{a} r-cran-memoise{a} r-cran-mime{a} r-cran-openssl{a} r-cran-pkgconfig{a} r-cran-plogr{a} r-cran-r6{a} r-cran-rlang{a} r-cran-rsqlite{a} r-cran-sys{a} r-cran-vctrs{a} readline-common{a} sensible-utils{a} tzdata{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc cme curl devscripts git-buildpackage krb5-locales libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libio-compress-brotli-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libx11-protocol-perl lynx publicsuffix r-bioc-biocstyle r-bioc-biocversion r-cran-base64enc r-cran-bench r-cran-brio r-cran-callr r-cran-covr r-cran-dbitest r-cran-decor r-cran-desc r-cran-digest r-cran-dplyr r-cran-fs r-cran-generics r-cran-ggplot2 r-cran-gh r-cran-hms r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-jpeg r-cran-knitr r-cran-later r-cran-lintr r-cran-lobstr r-cran-magrittr r-cran-markdown r-cran-microbenchmark r-cran-mockery r-cran-pillar r-cran-pkgdown r-cran-png r-cran-processx r-cran-progress r-cran-ps r-cran-r.devices r-cran-r.rsp r-cran-rcpp r-cran-readr r-cran-remotes r-cran-rmarkdown r-cran-rprojroot r-cran-rstudioapi r-cran-rvest r-cran-scales r-cran-sodium r-cran-spelling r-cran-testthat r-cran-tibble r-cran-tidyverse r-cran-waldo r-cran-webutils r-cran-whoami r-cran-withr r-cran-xml2 r-cran-zeallot r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 240 newly installed, 0 to remove and 0 not upgraded. Need to get 162 MB of archives. After unpacking 410 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 tzdata all 2024a-4 [255 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-5 [69.3 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 openssl arm64 3.3.2-1 [1348 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 ca-certificates all 20240203 [158 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.22.5-2 [198 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-5 [1129 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40.2-9 [96.6 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 ucf all 3.0043+nmu1 [55.2 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 architecture-properties arm64 0.2.3 [2184 B] Get: 17 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3 [493 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.22.5-2 [723 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 dctrl-tools arm64 2.24-3+b1 [125 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.20 [89.7 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 29 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-5 [9224 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.1 [630 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.22.5-2 [1532 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.20 [915 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 zip arm64 3.0-14 [225 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 unzip arm64 6.0-28+b1 [158 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 libpaper1 arm64 1.1.29+b1 [12.9 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libpaper-utils arm64 1.1.29+b1 [9068 B] Get: 41 http://deb.debian.org/debian trixie/main arm64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.0-3 [91.7 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.3-1 [90.2 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b4 [292 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libpng16-16t64 arm64 1.6.44-2 [273 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 fontconfig-config arm64 2.15.0-1.1 [317 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libfontconfig1 arm64 2.15.0-1.1 [385 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libpixman-1-0 arm64 0.42.2-1+b1 [477 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.9-1+b1 [18.1 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.2-3+b1 [24.3 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.17.0-2 [143 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.7-1 [328 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.7-1+b1 [775 kB] Get: 57 http://deb.debian.org/debian trixie/main arm64 libxcb-render0 arm64 1.17.0-2 [115 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 libxcb-shm0 arm64 1.17.0-2 [105 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 libxext6 arm64 2:1.3.4-1+b2 [49.3 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 libxrender1 arm64 1:0.9.10-1.1+b1 [27.0 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 libcairo2 arm64 1.18.2-2 [483 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.1-1 [22.8 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 65 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B] Get: 66 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8 [20.0 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8 [55.4 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 libldap-2.5-0 arm64 2.5.18+dfsg-3+b1 [175 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.63.0-1 [71.2 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 libpsl5t64 arm64 0.21.2-1.1 [56.8 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b4 [56.7 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 libcurl4t64 arm64 8.10.1-2 [322 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.22-1 [42.2 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 libglib2.0-0t64 arm64 2.82.2-2 [1409 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-3 [172 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14.2.0-6 [361 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.0-3 [1757 kB] Get: 81 http://deb.debian.org/debian trixie/main arm64 fontconfig arm64 2.15.0-1.1 [462 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 libfribidi0 arm64 1.0.15-1 [71.8 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB] Get: 84 http://deb.debian.org/debian trixie/main arm64 libharfbuzz0b arm64 10.0.1-1 [441 kB] Get: 85 http://deb.debian.org/debian trixie/main arm64 libthai-data all 0.1.29-2 [168 kB] Get: 86 http://deb.debian.org/debian trixie/main arm64 libdatrie1 arm64 0.2.13-3 [37.2 kB] Get: 87 http://deb.debian.org/debian trixie/main arm64 libthai0 arm64 0.1.29-2 [48.0 kB] Get: 88 http://deb.debian.org/debian trixie/main arm64 libpango-1.0-0 arm64 1.54.0+ds-3 [210 kB] Get: 89 http://deb.debian.org/debian trixie/main arm64 libpangoft2-1.0-0 arm64 1.54.0+ds-3 [51.8 kB] Get: 90 http://deb.debian.org/debian trixie/main arm64 libpangocairo-1.0-0 arm64 1.54.0+ds-3 [33.5 kB] Get: 91 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-5 [159 kB] Get: 92 http://deb.debian.org/debian trixie/main arm64 libtcl8.6 arm64 8.6.15+dfsg-2 [982 kB] Get: 93 http://deb.debian.org/debian trixie/main arm64 libjbig0 arm64 2.1-6.1+b1 [30.4 kB] Get: 94 http://deb.debian.org/debian trixie/main arm64 liblerc4 arm64 4.0.0+ds-4+b1 [142 kB] Get: 95 http://deb.debian.org/debian trixie/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [111 kB] Get: 96 http://deb.debian.org/debian trixie/main arm64 libwebp7 arm64 1.4.0-0.1 [267 kB] Get: 97 http://deb.debian.org/debian trixie/main arm64 libtiff6 arm64 4.5.1+git230720-5 [309 kB] Get: 98 http://deb.debian.org/debian trixie/main arm64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 99 http://deb.debian.org/debian trixie/main arm64 libtirpc3t64 arm64 1.3.4+ds-1.3 [78.4 kB] Get: 100 http://deb.debian.org/debian trixie/main arm64 libxft2 arm64 2.3.6-1+b1 [51.0 kB] Get: 101 http://deb.debian.org/debian trixie/main arm64 x11-common all 1:7.7+23.1 [216 kB] Get: 102 http://deb.debian.org/debian trixie/main arm64 libxss1 arm64 1:1.2.3-1+b1 [17.0 kB] Get: 103 http://deb.debian.org/debian trixie/main arm64 libtk8.6 arm64 8.6.15-1 [738 kB] Get: 104 http://deb.debian.org/debian trixie/main arm64 libice6 arm64 2:1.0.10-1+b1 [53.7 kB] Get: 105 http://deb.debian.org/debian trixie/main arm64 libsm6 arm64 2:1.2.3-1+b1 [32.7 kB] Get: 106 http://deb.debian.org/debian trixie/main arm64 libxt6t64 arm64 1:1.2.1-1.2 [172 kB] Get: 107 http://deb.debian.org/debian trixie/main arm64 r-base-core arm64 4.4.1-3 [28.0 MB] Get: 108 http://deb.debian.org/debian trixie/main arm64 libgfortran-14-dev arm64 14.2.0-6 [418 kB] Get: 109 http://deb.debian.org/debian trixie/main arm64 gfortran-14-aarch64-linux-gnu arm64 14.2.0-6 [9787 kB] Get: 110 http://deb.debian.org/debian trixie/main arm64 gfortran-14 arm64 14.2.0-6 [11.9 kB] Get: 111 http://deb.debian.org/debian trixie/main arm64 gfortran-aarch64-linux-gnu arm64 4:14.2.0-1 [1284 B] Get: 112 http://deb.debian.org/debian trixie/main arm64 gfortran arm64 4:14.2.0-1 [1424 B] Get: 113 http://deb.debian.org/debian trixie/main arm64 libblas-dev arm64 3.12.0-3 [98.2 kB] Get: 114 http://deb.debian.org/debian trixie/main arm64 liblapack-dev arm64 3.12.0-3 [3584 kB] Get: 115 http://deb.debian.org/debian trixie/main arm64 libncurses6 arm64 6.5-2 [95.7 kB] Get: 116 http://deb.debian.org/debian trixie/main arm64 libncurses-dev arm64 6.5-2 [337 kB] Get: 117 http://deb.debian.org/debian trixie/main arm64 libreadline-dev arm64 8.2-5 [155 kB] Get: 118 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo-dev arm64 1:2.1.5-3 [292 kB] Get: 119 http://deb.debian.org/debian trixie/main arm64 libjpeg-dev arm64 1:2.1.5-3 [71.9 kB] Get: 120 http://deb.debian.org/debian trixie/main arm64 libpcre2-16-0 arm64 10.42-4+b1 [217 kB] Get: 121 http://deb.debian.org/debian trixie/main arm64 libpcre2-32-0 arm64 10.42-4+b1 [207 kB] Get: 122 http://deb.debian.org/debian trixie/main arm64 libpcre2-posix3 arm64 10.42-4+b1 [55.8 kB] Get: 123 http://deb.debian.org/debian trixie/main arm64 libpcre2-dev arm64 10.42-4+b1 [669 kB] Get: 124 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1 [916 kB] Get: 125 http://deb.debian.org/debian trixie/main arm64 libpng-dev arm64 1.6.44-2 [360 kB] Get: 126 http://deb.debian.org/debian trixie/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 127 http://deb.debian.org/debian trixie/main arm64 liblzma-dev arm64 5.6.3-1 [312 kB] Get: 128 http://deb.debian.org/debian trixie/main arm64 icu-devtools arm64 72.1-5 [194 kB] Get: 129 http://deb.debian.org/debian trixie/main arm64 libicu-dev arm64 72.1-5 [10.2 MB] Get: 130 http://deb.debian.org/debian trixie/main arm64 libxmuu1 arm64 2:1.1.3-3+b2 [22.0 kB] Get: 131 http://deb.debian.org/debian trixie/main arm64 xauth arm64 1:1.1.2-1+b1 [35.9 kB] Get: 132 http://deb.debian.org/debian trixie/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 133 http://deb.debian.org/debian trixie/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 134 http://deb.debian.org/debian trixie/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 135 http://deb.debian.org/debian trixie/main arm64 libtirpc-dev arm64 1.3.4+ds-1.3 [192 kB] Get: 136 http://deb.debian.org/debian trixie/main arm64 libdeflate-dev arm64 1.22-1 [51.2 kB] Get: 137 http://deb.debian.org/debian trixie/main arm64 r-base-dev all 4.4.1-3 [4512 B] Get: 138 http://deb.debian.org/debian trixie/main arm64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 139 http://deb.debian.org/debian trixie/main arm64 libswitch-perl all 2.17-3 [20.3 kB] Get: 140 http://deb.debian.org/debian trixie/main arm64 libclone-perl arm64 0.47-1+b1 [13.7 kB] Get: 141 http://deb.debian.org/debian trixie/main arm64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 142 http://deb.debian.org/debian trixie/main arm64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 143 http://deb.debian.org/debian trixie/main arm64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 144 http://deb.debian.org/debian trixie/main arm64 libio-html-perl all 1.004-3 [16.2 kB] Get: 145 http://deb.debian.org/debian trixie/main arm64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 146 http://deb.debian.org/debian trixie/main arm64 liburi-perl all 5.30-1 [105 kB] Get: 147 http://deb.debian.org/debian trixie/main arm64 libhttp-message-perl all 7.00-2 [79.8 kB] Get: 148 http://deb.debian.org/debian trixie/main arm64 libparams-util-perl arm64 1.102-3+b1 [23.7 kB] Get: 149 http://deb.debian.org/debian trixie/main arm64 libsub-install-perl all 0.929-1 [10.5 kB] Get: 150 http://deb.debian.org/debian trixie/main arm64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get: 151 http://deb.debian.org/debian trixie/main arm64 libb-hooks-op-check-perl arm64 0.22-3+b2 [10.6 kB] Get: 152 http://deb.debian.org/debian trixie/main arm64 libdynaloader-functions-perl all 0.004-1 [12.1 kB] Get: 153 http://deb.debian.org/debian trixie/main arm64 libdevel-callchecker-perl arm64 0.009-1+b1 [16.3 kB] Get: 154 http://deb.debian.org/debian trixie/main arm64 libparams-classify-perl arm64 0.015-2+b4 [22.3 kB] Get: 155 http://deb.debian.org/debian trixie/main arm64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 156 http://deb.debian.org/debian trixie/main arm64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 157 http://deb.debian.org/debian trixie/main arm64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get: 158 http://deb.debian.org/debian trixie/main arm64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get: 159 http://deb.debian.org/debian trixie/main arm64 libclass-load-perl all 0.25-2 [15.3 kB] Get: 160 http://deb.debian.org/debian trixie/main arm64 libclass-load-xs-perl arm64 0.10-2+b4 [14.3 kB] Get: 161 http://deb.debian.org/debian trixie/main arm64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get: 162 http://deb.debian.org/debian trixie/main arm64 libdevel-globaldestruction-perl all 0.14-4 [7144 B] Get: 163 http://deb.debian.org/debian trixie/main arm64 libalgorithm-c3-perl all 0.11-2 [10.8 kB] Get: 164 http://deb.debian.org/debian trixie/main arm64 libclass-c3-perl all 0.35-2 [21.0 kB] Get: 165 http://deb.debian.org/debian trixie/main arm64 libmro-compat-perl all 0.15-2 [11.8 kB] Get: 166 http://deb.debian.org/debian trixie/main arm64 libdevel-overloadinfo-perl all 0.007-1 [7896 B] Get: 167 http://deb.debian.org/debian trixie/main arm64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get: 168 http://deb.debian.org/debian trixie/main arm64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get: 169 http://deb.debian.org/debian trixie/main arm64 libeval-closure-perl all 0.14-3 [11.2 kB] Get: 170 http://deb.debian.org/debian trixie/main arm64 libdist-checkconflicts-perl all 0.11-2 [10.5 kB] Get: 171 http://deb.debian.org/debian trixie/main arm64 libmodule-runtime-conflicts-perl all 0.003-2 [7356 B] Get: 172 http://deb.debian.org/debian trixie/main arm64 libpackage-deprecationmanager-perl all 0.18-1 [17.6 kB] Get: 173 http://deb.debian.org/debian trixie/main arm64 libpackage-stash-xs-perl arm64 0.30-1+b4 [19.0 kB] Get: 174 http://deb.debian.org/debian trixie/main arm64 libmoose-perl arm64 2.2207-1+b2 [766 kB] Get: 175 http://deb.debian.org/debian trixie/main arm64 libvariable-magic-perl arm64 0.64-1+b1 [43.9 kB] Get: 176 http://deb.debian.org/debian trixie/main arm64 libb-hooks-endofscope-perl all 0.28-1 [17.5 kB] Get: 177 http://deb.debian.org/debian trixie/main arm64 libsub-identify-perl arm64 0.14-3+b3 [11.2 kB] Get: 178 http://deb.debian.org/debian trixie/main arm64 libsub-name-perl arm64 0.27-1+b3 [12.4 kB] Get: 179 http://deb.debian.org/debian trixie/main arm64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get: 180 http://deb.debian.org/debian trixie/main arm64 libnghttp3-9 arm64 1.4.0-1 [59.5 kB] Get: 181 http://deb.debian.org/debian trixie/main arm64 libngtcp2-16 arm64 1.6.0-1 [112 kB] Get: 182 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls8 arm64 1.6.0-1 [18.5 kB] Get: 183 http://deb.debian.org/debian trixie/main arm64 libcurl3t64-gnutls arm64 8.10.1-2 [328 kB] Get: 184 http://deb.debian.org/debian trixie/main arm64 libwww-curl-perl arm64 4.17-11 [57.3 kB] Get: 185 http://deb.debian.org/debian trixie/main arm64 libwww-curl-simple-perl all 0.100191-3 [12.6 kB] Get: 186 http://deb.debian.org/debian trixie/main arm64 dh-r all 20231212 [42.2 kB] Get: 187 http://deb.debian.org/debian trixie/main arm64 r-bioc-biocgenerics all 0.50.0-2 [607 kB] Get: 188 http://deb.debian.org/debian trixie/main arm64 r-bioc-affxparser arm64 1.76.0-1 [973 kB] Get: 189 http://deb.debian.org/debian trixie/main arm64 r-bioc-zlibbioc all 1.50.0+dfsg-2 [9876 B] Get: 190 http://deb.debian.org/debian trixie/main arm64 r-bioc-affyio arm64 1.74.0-1 [81.5 kB] Get: 191 http://deb.debian.org/debian trixie/main arm64 r-bioc-biobase arm64 2.64.0-4 [2132 kB] Get: 192 http://deb.debian.org/debian trixie/main arm64 r-bioc-s4vectors arm64 0.42.1+dfsg-2 [1889 kB] Get: 193 http://deb.debian.org/debian trixie/main arm64 r-bioc-iranges arm64 2.38.1-1 [2302 kB] Get: 194 http://deb.debian.org/debian trixie/main arm64 r-bioc-xvector arm64 0.44.0-1 [620 kB] Get: 195 http://deb.debian.org/debian trixie/main arm64 r-cran-curl arm64 5.2.3+dfsg-1 [177 kB] Get: 196 http://deb.debian.org/debian trixie/main arm64 r-cran-jsonlite arm64 1.8.9+dfsg-1 [443 kB] Get: 197 http://deb.debian.org/debian trixie/main arm64 r-cran-mime arm64 0.12-2 [35.7 kB] Get: 198 http://deb.debian.org/debian trixie/main arm64 r-cran-sys arm64 3.4.3-1 [44.2 kB] Get: 199 http://deb.debian.org/debian trixie/main arm64 r-cran-askpass arm64 1.2.1-1 [24.4 kB] Get: 200 http://deb.debian.org/debian trixie/main arm64 r-cran-openssl arm64 2.2.0+dfsg-1 [399 kB] Get: 201 http://deb.debian.org/debian trixie/main arm64 r-cran-r6 all 2.5.1-1 [105 kB] Get: 202 http://deb.debian.org/debian trixie/main arm64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] Get: 203 http://deb.debian.org/debian trixie/main arm64 r-bioc-ucsc.utils all 1.0.0+ds-2 [77.0 kB] Get: 204 http://deb.debian.org/debian trixie/main arm64 r-bioc-genomeinfodbdata all 1.2.12-1 [12.6 MB] Get: 205 http://deb.debian.org/debian trixie/main arm64 r-bioc-genomeinfodb all 1.40.1+dfsg-1 [3843 kB] Get: 206 http://deb.debian.org/debian trixie/main arm64 r-cran-crayon all 1.5.2-1 [165 kB] Get: 207 http://deb.debian.org/debian trixie/main arm64 r-bioc-biostrings arm64 2.72.1+dfsg-1 [13.2 MB] Get: 208 http://deb.debian.org/debian trixie/main arm64 r-cran-lattice arm64 0.22-6-1 [1391 kB] Get: 209 http://deb.debian.org/debian trixie/main arm64 r-cran-matrix arm64 1.7-1-1 [4023 kB] Get: 210 http://deb.debian.org/debian trixie/main arm64 r-cran-matrixstats arm64 1.4.1-1 [493 kB] Get: 211 http://deb.debian.org/debian trixie/main arm64 r-bioc-matrixgenerics all 1.16.0-2 [423 kB] Get: 212 http://deb.debian.org/debian trixie/main arm64 r-cran-abind all 1.4-8-1 [68.1 kB] Get: 213 http://deb.debian.org/debian trixie/main arm64 r-bioc-s4arrays arm64 1.4.1+dfsg-1 [523 kB] Get: 214 http://deb.debian.org/debian trixie/main arm64 r-bioc-sparsearray arm64 1.4.8+dfsg-1 [1247 kB] Get: 215 http://deb.debian.org/debian trixie/main arm64 r-bioc-delayedarray arm64 0.30.1+dfsg-1 [1847 kB] Get: 216 http://deb.debian.org/debian trixie/main arm64 r-bioc-genomicranges arm64 1.56.1+dfsg-1 [1842 kB] Get: 217 http://deb.debian.org/debian trixie/main arm64 r-bioc-summarizedexperiment all 1.34.0+dfsg-1 [1102 kB] Get: 218 http://deb.debian.org/debian trixie/main arm64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get: 219 http://deb.debian.org/debian trixie/main arm64 r-cran-iterators all 1.0.14-1 [337 kB] Get: 220 http://deb.debian.org/debian trixie/main arm64 r-cran-foreach all 1.5.2-1 [122 kB] Get: 221 http://deb.debian.org/debian trixie/main arm64 r-cran-biocmanager all 1.30.25+dfsg-1 [132 kB] Get: 222 http://deb.debian.org/debian trixie/main arm64 r-cran-bit arm64 4.0.5-1+b1 [1075 kB] Get: 223 http://deb.debian.org/debian trixie/main arm64 r-cran-bit64 arm64 4.0.5-1+b1 [475 kB] Get: 224 http://deb.debian.org/debian trixie/main arm64 r-cran-rlang arm64 1.1.4-1 [1706 kB] Get: 225 http://deb.debian.org/debian trixie/main arm64 r-cran-cli arm64 3.6.3-1 [1340 kB] Get: 226 http://deb.debian.org/debian trixie/main arm64 r-cran-glue arm64 1.7.0-1 [156 kB] Get: 227 http://deb.debian.org/debian trixie/main arm64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] Get: 228 http://deb.debian.org/debian trixie/main arm64 r-cran-vctrs arm64 0.6.5-1+b1 [1378 kB] Get: 229 http://deb.debian.org/debian trixie/main arm64 r-cran-blob all 1.2.4-1 [49.6 kB] Get: 230 http://deb.debian.org/debian trixie/main arm64 r-cran-dbi all 1.2.3-1 [852 kB] Get: 231 http://deb.debian.org/debian trixie/main arm64 r-cran-fastmap arm64 1.2.0-1 [68.8 kB] Get: 232 http://deb.debian.org/debian trixie/main arm64 r-cran-cachem arm64 1.1.0-1 [74.0 kB] Get: 233 http://deb.debian.org/debian trixie/main arm64 r-cran-memoise all 2.0.1-1 [53.8 kB] Get: 234 http://deb.debian.org/debian trixie/main arm64 r-cran-pkgconfig all 2.0.3-2 [19.6 kB] Get: 235 http://deb.debian.org/debian trixie/main arm64 r-cran-plogr all 0.2.0-3 [14.9 kB] Get: 236 http://deb.debian.org/debian trixie/main arm64 r-cran-cpp11 all 0.5.0-1 [213 kB] Get: 237 http://deb.debian.org/debian trixie/main arm64 r-cran-rsqlite arm64 2.3.7-2 [1117 kB] Get: 238 http://deb.debian.org/debian trixie/main arm64 r-cran-ff arm64 4.5.0+ds-1 [987 kB] Get: 239 http://deb.debian.org/debian trixie/main arm64 r-bioc-oligoclasses all 1.66.0-1 [1268 kB] Get: 240 http://deb.debian.org/debian trixie/main arm64 r-bioc-preprocesscore arm64 1.66.0+ds-2 [144 kB] Fetched 162 MB in 6s (27.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package tzdata. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20061 files and directories currently installed.) Preparing to unpack .../000-tzdata_2024a-4_all.deb ... Unpacking tzdata (2024a-4) ... Selecting previously unselected package readline-common. Preparing to unpack .../001-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.24_all.deb ... 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Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-5) ... Selecting previously unselected package libtcl8.6:arm64. Preparing to unpack .../091-libtcl8.6_8.6.15+dfsg-2_arm64.deb ... Unpacking libtcl8.6:arm64 (8.6.15+dfsg-2) ... Selecting previously unselected package libjbig0:arm64. Preparing to unpack .../092-libjbig0_2.1-6.1+b1_arm64.deb ... Unpacking libjbig0:arm64 (2.1-6.1+b1) ... Selecting previously unselected package liblerc4:arm64. 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Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3 to /lib/aarch64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3.0.0 to /lib/aarch64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:arm64 (1.3.4+ds-1.3) ... Selecting previously unselected package libxft2:arm64. Preparing to unpack .../099-libxft2_2.3.6-1+b1_arm64.deb ... Unpacking libxft2:arm64 (2.3.6-1+b1) ... Selecting previously unselected package x11-common. Preparing to unpack .../100-x11-common_1%3a7.7+23.1_all.deb ... Unpacking x11-common (1:7.7+23.1) ... Selecting previously unselected package libxss1:arm64. Preparing to unpack .../101-libxss1_1%3a1.2.3-1+b1_arm64.deb ... Unpacking libxss1:arm64 (1:1.2.3-1+b1) ... Selecting previously unselected package libtk8.6:arm64. Preparing to unpack .../102-libtk8.6_8.6.15-1_arm64.deb ... Unpacking libtk8.6:arm64 (8.6.15-1) ... Selecting previously unselected package libice6:arm64. 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Setting up r-cran-matrix (1.7-1-1) ... Setting up r-cran-cachem (1.1.0-1) ... Setting up r-bioc-preprocesscore (1.66.0+ds-2) ... Setting up r-bioc-iranges (2.38.1-1) ... Setting up r-cran-vctrs (0.6.5-1+b1) ... Setting up r-cran-openssl (2.2.0+dfsg-1) ... Setting up r-bioc-affyio (1.74.0-1) ... Setting up r-bioc-s4arrays (1.4.1+dfsg-1) ... Setting up libwww-curl-simple-perl (0.100191-3) ... Setting up r-cran-httr (1.4.7+dfsg-1) ... Setting up r-cran-memoise (2.0.1-1) ... Setting up r-cran-blob (1.2.4-1) ... Setting up r-bioc-xvector (0.44.0-1) ... Setting up dh-r (20231212) ... Setting up r-cran-rsqlite (2.3.7-2) ... Setting up r-bioc-ucsc.utils (1.0.0+ds-2) ... Setting up r-bioc-sparsearray (1.4.8+dfsg-1) ... Setting up r-bioc-genomeinfodb (1.40.1+dfsg-1) ... Setting up r-bioc-delayedarray (0.30.1+dfsg-1) ... Setting up r-bioc-genomicranges (1.56.1+dfsg-1) ... Setting up r-bioc-biostrings (2.72.1+dfsg-1) ... Setting up r-bioc-summarizedexperiment (1.34.0+dfsg-1) ... Setting up r-bioc-oligoclasses (1.66.0-1) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/r-bioc-oligo-1.68.2+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../r-bioc-oligo_1.68.2+ds-1_source.changes dpkg-buildpackage: info: source package r-bioc-oligo dpkg-buildpackage: info: source version 1.68.2+ds-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 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 binary dh binary --buildsystem R dh_update_autotools_config -O--buildsystem=R dh_autoreconf -O--buildsystem=R dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R dh_auto_test -O--buildsystem=R create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/r-bioc-oligo-1.68.2+ds' dh_auto_install I: R Package: oligo Version: 1.68.2 I: Building using R version 4.4.1-3 I: R API version: r-api-4.0 I: Using built-time from d/changelog: Wed, 07 Aug 2024 16:08:34 +0200 mkdir -p /build/reproducible-path/r-bioc-oligo-1.68.2\+ds/debian/r-bioc-oligo/usr/lib/R/site-library R CMD INSTALL -l /build/reproducible-path/r-bioc-oligo-1.68.2\+ds/debian/r-bioc-oligo/usr/lib/R/site-library --clean . "--built-timestamp='Wed, 07 Aug 2024 16:08:34 +0200'" * installing *source* package 'oligo' ... ** using staged installation ** libs using C compiler: 'gcc (Debian 14.2.0-6) 14.2.0' make[2]: Entering directory '/build/reproducible-path/r-bioc-oligo-1.68.2+ds/src' gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/preprocessCore/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c DABG.c -o DABG.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/preprocessCore/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ParserGzXYS.c -o ParserGzXYS.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/preprocessCore/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ParserXYS.c -o ParserXYS.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/preprocessCore/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c baseProfile.c -o baseProfile.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/preprocessCore/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c basecontent.c -o basecontent.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/preprocessCore/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c chipbackground.c -o chipbackground.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/preprocessCore/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c mas5calls.c -o mas5calls.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/preprocessCore/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rma2.c -o rma2.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/preprocessCore/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rma_common.c -o rma_common.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/preprocessCore/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c trimmed.c -o trimmed.o gcc -shared -L/usr/lib/R/lib -Wl,-z,relro -o oligo.so DABG.o ParserGzXYS.o ParserXYS.o baseProfile.o basecontent.o chipbackground.o mas5calls.o rma2.o rma_common.o trimmed.o -lz -lgfortran -lm -llapack -lblas -L/usr/lib/R/lib -lR make[2]: Leaving directory '/build/reproducible-path/r-bioc-oligo-1.68.2+ds/src' make[2]: Entering directory '/build/reproducible-path/r-bioc-oligo-1.68.2+ds/src' make[2]: Leaving directory '/build/reproducible-path/r-bioc-oligo-1.68.2+ds/src' installing to /build/reproducible-path/r-bioc-oligo-1.68.2+ds/debian/r-bioc-oligo/usr/lib/R/site-library/00LOCK-r-bioc-oligo-1.68.2+ds/00new/oligo/libs ** R ** inst ** byte-compile and prepare package for lazy loading Note: in method for 'pm<-' with signature 'object="TilingFeatureSet",subset="ANY",target="ANY",value="array"': expanding the signature to include omitted arguments in definition: subset = "missing", target = "missing" Note: in method for 'mm<-' with signature 'object="TilingFeatureSet",subset="ANY",target="ANY",value="array"': expanding the signature to include omitted arguments in definition: subset = "missing", target = "missing" ** 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 (oligo) W: Ignoring specified R dependency: R (>= 3.2.0) I: Using r-bioc-biocgenerics for Depends:BiocGenerics (>= 0.13.11) I: Using r-bioc-oligoclasses for Depends:oligoClasses (>= 1.29.6) I: Using r-bioc-biobase for Depends:Biobase (>= 2.27.3) I: Using r-bioc-biostrings for Depends:Biostrings (>= 2.35.12) W: Cannot find a debian package for Suggests:BSgenome.Hsapiens.UCSC.hg18 W: Cannot find a debian package for Suggests:hapmap100kxba W: Cannot find a debian package for Suggests:pd.hg.u95av2 W: Cannot find a debian package for Suggests:pd.mapping50k.xba240 W: Cannot find a debian package for Suggests:pd.huex.1.0.st.v2 W: Cannot find a debian package for Suggests:pd.hg18.60mer.expr W: Cannot find a debian package for Suggests:pd.hugene.1.0.st.v1 W: Cannot find a debian package for Suggests:maqcExpression4plex I: Using r-bioc-genefilter for Suggests:genefilter I: Using r-bioc-limma for Suggests:limma I: Using r-cran-rcolorbrewer by changing version to for Suggests:RColorBrewer W: Cannot find a debian package for Suggests:oligoData I: Using r-bioc-biocstyle for Suggests:BiocStyle I: Using r-cran-knitr for Suggests:knitr I: Using r-cran-runit for Suggests:RUnit I: Using r-bioc-biomart for Suggests:biomaRt I: Using r-bioc-annotationdbi for Suggests:AnnotationDbi W: Cannot find a debian package for Suggests:ACME I: Using r-cran-rcurl for Suggests:RCurl I: Using r-bioc-affyio for Imports:affyio (>= 1.35.0) I: Using r-bioc-affxparser for Imports:affxparser (>= 1.39.4) I: Using r-cran-dbi for Imports:DBI (>= 0.3.1) I: Using r-cran-ff for Imports:ff I: Using r-bioc-preprocesscore for Imports:preprocessCore (>= 1.29.0) I: Using r-cran-rsqlite for Imports:RSQLite (>= 1.0.0) I: Using r-bioc-zlibbioc for Imports:zlibbioc I: Using r-bioc-preprocesscore for LinkingTo:preprocessCore I: BioConductor API version: r-api-bioc-3.19 I: Use r-bioc-oligo as Debian binary package for variables substitution find debian -name getVersions.sh | xargs -r chmod +x rm -f `grep -Rl -e "library(oligoData)" -e "'Getting sample dataset'" -e "maqcExpression4plex" debian/* | grep unitTests` make[1]: Leaving directory '/build/reproducible-path/r-bioc-oligo-1.68.2+ds' dh_installdocs -O--buildsystem=R dh_installchangelogs -O--buildsystem=R dh_installsystemduser -O--buildsystem=R dh_perl -O--buildsystem=R dh_link -O--buildsystem=R dh_strip_nondeterminism -O--buildsystem=R dh_compress -O--buildsystem=R dh_fixperms -O--buildsystem=R dh_missing -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 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=R dh_gencontrol -O--buildsystem=R dh_md5sums -O--buildsystem=R dh_builddeb -O--buildsystem=R dpkg-deb: building package 'r-bioc-oligo' in '../r-bioc-oligo_1.68.2+ds-1_arm64.deb'. dpkg-deb: building package 'r-bioc-oligo-dbgsym' in '../r-bioc-oligo-dbgsym_1.68.2+ds-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../r-bioc-oligo_1.68.2+ds-1_arm64.buildinfo dpkg-genchanges --build=binary -O../r-bioc-oligo_1.68.2+ds-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3686408 and its subdirectories I: Current time: Tue Oct 29 22:59:09 -12 2024 I: pbuilder-time-stamp: 1730285949